``` r
interacting_miRNAs <- unique(cor_bind_FA$miRNA) %>% na.omit
results_all_targets <- NULL  # initialize empty df

for(miRNA in interacting_miRNAs) {
  
  # Run topGO enrichment function
  miRNA_results <- miRNA_topGO_FE(miRNA, cor_bind_FA)
  
  # Only keep results if not empty
  if (nrow(miRNA_results) > 0) {
    
    # Add the miRNA source column
    miRNA_results$miRNA <- miRNA

    # Bind to the accumulating results data frame
    results_all_targets <- rbind(results_all_targets, miRNA_results)
  }
}
```

```
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 300 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	3 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 12:	6 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 11:	11 nodes to be scored	(159 eliminated genes)
```

```
## 
## 	 Level 10:	15 nodes to be scored	(214 eliminated genes)
```

```
## 
## 	 Level 9:	24 nodes to be scored	(238 eliminated genes)
```

```
## 
## 	 Level 8:	22 nodes to be scored	(284 eliminated genes)
```

```
## 
## 	 Level 7:	30 nodes to be scored	(315 eliminated genes)
```

```
## 
## 	 Level 6:	44 nodes to be scored	(464 eliminated genes)
```

```
## 
## 	 Level 5:	56 nodes to be scored	(656 eliminated genes)
```

```
## 
## 	 Level 4:	44 nodes to be scored	(813 eliminated genes)
```

```
## 
## 	 Level 3:	32 nodes to be scored	(1077 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(1307 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1388 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 183 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	8 nodes to be scored	(9 eliminated genes)
```

```
## 
## 	 Level 8:	16 nodes to be scored	(144 eliminated genes)
```

```
## 
## 	 Level 7:	25 nodes to be scored	(444 eliminated genes)
```

```
## 
## 	 Level 6:	35 nodes to be scored	(527 eliminated genes)
```

```
## 
## 	 Level 5:	37 nodes to be scored	(829 eliminated genes)
```

```
## 
## 	 Level 4:	33 nodes to be scored	(1046 eliminated genes)
```

```
## 
## 	 Level 3:	17 nodes to be scored	(1763 eliminated genes)
```

```
## 
## 	 Level 2:	7 nodes to be scored	(2014 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2462 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000082                  G1/S transition of mitotic cell cycle       104
## 2  GO:0001172                            RNA-templated transcription         1
## 3  GO:0002230 positive regulation of defense response to virus by...         1
## 4  GO:0001913                           T cell mediated cytotoxicity         1
## 5  GO:0004176                       ATP-dependent peptidase activity         2
## 6  GO:0003964                   RNA-directed DNA polymerase activity       122
## 7  GO:0004334                           fumarylacetoacetase activity         1
## 8  GO:0004862       cAMP-dependent protein kinase inhibitor activity         1
## 9  GO:0008137               NADH dehydrogenase (ubiquinone) activity         1
## 10 GO:0036381 pyridoxal 5'-phosphate synthase (glutamine hydrolys...         1
## 11 GO:0000254                      C-4 methylsterol oxidase activity         1
## 12 GO:0004129                          cytochrome-c oxidase activity         1
##    Significant Expected  Fisher               type
## 1            9     2.65 0.00080 Biological.Process
## 2            1     0.03 0.02550 Biological.Process
## 3            1     0.03 0.02550 Biological.Process
## 4            1     0.03 0.02550 Biological.Process
## 5            2     0.06 0.00099 Molecular.Function
## 6           11     3.87 0.00135 Molecular.Function
## 7            1     0.03 0.03170 Molecular.Function
## 8            1     0.03 0.03170 Molecular.Function
## 9            1     0.03 0.03170 Molecular.Function
## 10           1     0.03 0.03170 Molecular.Function
## 11           1     0.03 0.03170 Molecular.Function
## 12           1     0.03 0.03170 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 312 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	5 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 12:	6 nodes to be scored	(17 eliminated genes)
```

```
## 
## 	 Level 11:	10 nodes to be scored	(162 eliminated genes)
```

```
## 
## 	 Level 10:	17 nodes to be scored	(210 eliminated genes)
```

```
## 
## 	 Level 9:	24 nodes to be scored	(213 eliminated genes)
```

```
## 
## 	 Level 8:	26 nodes to be scored	(260 eliminated genes)
```

```
## 
## 	 Level 7:	39 nodes to be scored	(305 eliminated genes)
```

```
## 
## 	 Level 6:	51 nodes to be scored	(430 eliminated genes)
```

```
## 
## 	 Level 5:	59 nodes to be scored	(609 eliminated genes)
```

```
## 
## 	 Level 4:	36 nodes to be scored	(735 eliminated genes)
```

```
## 
## 	 Level 3:	25 nodes to be scored	(1003 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1245 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1361 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 168 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 9:	10 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 8:	11 nodes to be scored	(147 eliminated genes)
```

```
## 
## 	 Level 7:	21 nodes to be scored	(464 eliminated genes)
```

```
## 
## 	 Level 6:	30 nodes to be scored	(573 eliminated genes)
```

```
## 
## 	 Level 5:	33 nodes to be scored	(850 eliminated genes)
```

```
## 
## 	 Level 4:	26 nodes to be scored	(1175 eliminated genes)
```

```
## 
## 	 Level 3:	20 nodes to be scored	(1905 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(2100 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2542 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0006886                        intracellular protein transport         5
## 2 GO:0002225 positive regulation of antimicrobial peptide produc...         1
## 3 GO:0000289       nuclear-transcribed mRNA poly(A) tail shortening         2
## 4 GO:0001578                           microtubule bundle formation         2
## 5 GO:0003844             1,4-alpha-glucan branching enzyme activity         1
## 6 GO:0005220 inositol 1,4,5-trisphosphate-sensitive calcium-rele...         1
## 7 GO:0004335                                 galactokinase activity         1
## 8 GO:0004467              long-chain fatty acid-CoA ligase activity         1
## 9 GO:0004997        thyrotropin-releasing hormone receptor activity         1
##   Significant Expected Fisher               type
## 1           2     0.10 0.0037 Biological.Process
## 2           1     0.02 0.0198 Biological.Process
## 3           1     0.04 0.0393 Biological.Process
## 4           1     0.04 0.0393 Biological.Process
## 5           1     0.03 0.0300 Molecular.Function
## 6           1     0.03 0.0300 Molecular.Function
## 7           1     0.03 0.0300 Molecular.Function
## 8           1     0.03 0.0300 Molecular.Function
## 9           1     0.03 0.0300 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 206 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	2 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 11:	2 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 10:	3 nodes to be scored	(70 eliminated genes)
```

```
## 
## 	 Level 9:	9 nodes to be scored	(75 eliminated genes)
```

```
## 
## 	 Level 8:	14 nodes to be scored	(116 eliminated genes)
```

```
## 
## 	 Level 7:	24 nodes to be scored	(171 eliminated genes)
```

```
## 
## 	 Level 6:	33 nodes to be scored	(298 eliminated genes)
```

```
## 
## 	 Level 5:	40 nodes to be scored	(661 eliminated genes)
```

```
## 
## 	 Level 4:	37 nodes to be scored	(821 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(1014 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1182 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1342 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 133 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	6 nodes to be scored	(101 eliminated genes)
```

```
## 
## 	 Level 7:	14 nodes to be scored	(389 eliminated genes)
```

```
## 
## 	 Level 6:	23 nodes to be scored	(475 eliminated genes)
```

```
## 
## 	 Level 5:	30 nodes to be scored	(781 eliminated genes)
```

```
## 
## 	 Level 4:	26 nodes to be scored	(1057 eliminated genes)
```

```
## 
## 	 Level 3:	18 nodes to be scored	(1724 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(2098 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2467 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000349 generation of catalytic spliceosome for first trans...         1
## 2  GO:0000390                       spliceosomal complex disassembly         1
## 3  GO:0002218                   activation of innate immune response        15
## 4  GO:0001502                                 cartilage condensation         2
## 5  GO:0001895                                     retina homeostasis         2
## 6  GO:0001503                                           ossification        42
## 7  GO:0003964                   RNA-directed DNA polymerase activity       122
## 8  GO:0047869          dimethylpropiothetin dethiomethylase activity        19
## 9  GO:0004095              carnitine O-palmitoyltransferase activity         1
## 10 GO:0005436                    sodium:phosphate symporter activity         1
## 11 GO:0004013                        adenosylhomocysteinase activity         1
## 12 GO:0004467              long-chain fatty acid-CoA ligase activity         1
## 13 GO:0000703 oxidized pyrimidine nucleobase lesion DNA N-glycosy...         1
## 14 GO:0000048                           peptidyltransferase activity         1
##    Significant Expected  Fisher               type
## 1            1     0.02 0.02200 Biological.Process
## 2            1     0.02 0.02200 Biological.Process
## 3            2     0.33 0.04100 Biological.Process
## 4            1     0.04 0.04300 Biological.Process
## 5            1     0.04 0.04300 Biological.Process
## 6            3     0.92 0.04500 Biological.Process
## 7           11     3.65 0.00082 Molecular.Function
## 8            4     0.57 0.00204 Molecular.Function
## 9            1     0.03 0.02990 Molecular.Function
## 10           1     0.03 0.02990 Molecular.Function
## 11           1     0.03 0.02990 Molecular.Function
## 12           1     0.03 0.02990 Molecular.Function
## 13           1     0.03 0.02990 Molecular.Function
## 14           1     0.03 0.02990 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 249 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 11:	6 nodes to be scored	(144 eliminated genes)
```

```
## 
## 	 Level 10:	7 nodes to be scored	(211 eliminated genes)
```

```
## 
## 	 Level 9:	15 nodes to be scored	(218 eliminated genes)
```

```
## 
## 	 Level 8:	18 nodes to be scored	(259 eliminated genes)
```

```
## 
## 	 Level 7:	27 nodes to be scored	(332 eliminated genes)
```

```
## 
## 	 Level 6:	41 nodes to be scored	(459 eliminated genes)
```

```
## 
## 	 Level 5:	52 nodes to be scored	(648 eliminated genes)
```

```
## 
## 	 Level 4:	36 nodes to be scored	(783 eliminated genes)
```

```
## 
## 	 Level 3:	27 nodes to be scored	(1052 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1177 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1342 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 135 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	6 nodes to be scored	(101 eliminated genes)
```

```
## 
## 	 Level 7:	13 nodes to be scored	(390 eliminated genes)
```

```
## 
## 	 Level 6:	25 nodes to be scored	(475 eliminated genes)
```

```
## 
## 	 Level 5:	32 nodes to be scored	(781 eliminated genes)
```

```
## 
## 	 Level 4:	27 nodes to be scored	(1075 eliminated genes)
```

```
## 
## 	 Level 3:	16 nodes to be scored	(1628 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(2159 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2443 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0007035                                 vacuolar acidification         1
## 2  GO:0000349 generation of catalytic spliceosome for first trans...         1
## 3  GO:0000390                       spliceosomal complex disassembly         1
## 4  GO:0002218                   activation of innate immune response        15
## 5  GO:0001895                                     retina homeostasis         2
## 6  GO:0001503                                           ossification        42
## 7  GO:0003964                   RNA-directed DNA polymerase activity       122
## 8  GO:0043531                                            ADP binding         1
## 9  GO:0005436                    sodium:phosphate symporter activity         1
## 10 GO:0004013                        adenosylhomocysteinase activity         1
## 11 GO:0004435          phosphatidylinositol phospholipase C activity         1
## 12 GO:0004467              long-chain fatty acid-CoA ligase activity         1
## 13 GO:0000703 oxidized pyrimidine nucleobase lesion DNA N-glycosy...         1
## 14 GO:0000048                           peptidyltransferase activity         1
## 15 GO:0003824                                     catalytic activity      1042
## 16 GO:0009034                                 tryptophanase activity         2
## 17 GO:0016829                                         lyase activity        58
##    Significant Expected Fisher               type
## 1            1     0.02 0.0230 Biological.Process
## 2            1     0.02 0.0230 Biological.Process
## 3            1     0.02 0.0230 Biological.Process
## 4            2     0.34 0.0440 Biological.Process
## 5            1     0.05 0.0450 Biological.Process
## 6            3     0.95 0.0480 Biological.Process
## 7            9     3.03 0.0028 Molecular.Function
## 8            1     0.02 0.0249 Molecular.Function
## 9            1     0.02 0.0249 Molecular.Function
## 10           1     0.02 0.0249 Molecular.Function
## 11           1     0.02 0.0249 Molecular.Function
## 12           1     0.02 0.0249 Molecular.Function
## 13           1     0.02 0.0249 Molecular.Function
## 14           1     0.02 0.0249 Molecular.Function
## 15          31    25.90 0.0301 Molecular.Function
## 16           1     0.05 0.0491 Molecular.Function
## 17           5     1.44 0.0493 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 209 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	5 nodes to be scored	(156 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(210 eliminated genes)
```

```
## 
## 	 Level 9:	11 nodes to be scored	(217 eliminated genes)
```

```
## 
## 	 Level 8:	15 nodes to be scored	(258 eliminated genes)
```

```
## 
## 	 Level 7:	23 nodes to be scored	(307 eliminated genes)
```

```
## 
## 	 Level 6:	35 nodes to be scored	(428 eliminated genes)
```

```
## 
## 	 Level 5:	42 nodes to be scored	(651 eliminated genes)
```

```
## 
## 	 Level 4:	30 nodes to be scored	(749 eliminated genes)
```

```
## 
## 	 Level 3:	25 nodes to be scored	(1013 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1138 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1342 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 124 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	4 nodes to be scored	(100 eliminated genes)
```

```
## 
## 	 Level 7:	12 nodes to be scored	(384 eliminated genes)
```

```
## 
## 	 Level 6:	22 nodes to be scored	(464 eliminated genes)
```

```
## 
## 	 Level 5:	28 nodes to be scored	(721 eliminated genes)
```

```
## 
## 	 Level 4:	24 nodes to be scored	(998 eliminated genes)
```

```
## 
## 	 Level 3:	19 nodes to be scored	(1537 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1927 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2560 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000390                       spliceosomal complex disassembly         1
## 2  GO:0002218                   activation of innate immune response        15
## 3  GO:0001895                                     retina homeostasis         2
## 4  GO:0001503                                           ossification        42
## 5  GO:0003964                   RNA-directed DNA polymerase activity       122
## 6  GO:0000993                      RNA polymerase II complex binding         1
## 7  GO:0043531                                            ADP binding         1
## 8  GO:0004013                        adenosylhomocysteinase activity         1
## 9  GO:0004467              long-chain fatty acid-CoA ligase activity         1
## 10 GO:0000703 oxidized pyrimidine nucleobase lesion DNA N-glycosy...         1
## 11 GO:0000048                           peptidyltransferase activity         1
##    Significant Expected Fisher               type
## 1            1     0.02 0.0210 Biological.Process
## 2            2     0.32 0.0390 Biological.Process
## 3            1     0.04 0.0420 Biological.Process
## 4            3     0.89 0.0420 Biological.Process
## 5            9     3.12 0.0034 Molecular.Function
## 6            1     0.03 0.0256 Molecular.Function
## 7            1     0.03 0.0256 Molecular.Function
## 8            1     0.03 0.0256 Molecular.Function
## 9            1     0.03 0.0256 Molecular.Function
## 10           1     0.03 0.0256 Molecular.Function
## 11           1     0.03 0.0256 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 2 1 1 1 2 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 239 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	7 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	9 nodes to be scored	(217 eliminated genes)
```

```
## 
## 	 Level 9:	13 nodes to be scored	(234 eliminated genes)
```

```
## 
## 	 Level 8:	19 nodes to be scored	(292 eliminated genes)
```

```
## 
## 	 Level 7:	21 nodes to be scored	(326 eliminated genes)
```

```
## 
## 	 Level 6:	37 nodes to be scored	(449 eliminated genes)
```

```
## 
## 	 Level 5:	51 nodes to be scored	(619 eliminated genes)
```

```
## 
## 	 Level 4:	39 nodes to be scored	(792 eliminated genes)
```

```
## 
## 	 Level 3:	26 nodes to be scored	(1061 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(1145 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1380 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 147 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	6 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 8:	9 nodes to be scored	(101 eliminated genes)
```

```
## 
## 	 Level 7:	20 nodes to be scored	(407 eliminated genes)
```

```
## 
## 	 Level 6:	27 nodes to be scored	(503 eliminated genes)
```

```
## 
## 	 Level 5:	31 nodes to be scored	(841 eliminated genes)
```

```
## 
## 	 Level 4:	29 nodes to be scored	(1172 eliminated genes)
```

```
## 
## 	 Level 3:	15 nodes to be scored	(1907 eliminated genes)
```

```
## 
## 	 Level 2:	6 nodes to be scored	(2185 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2426 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0002042      cell migration involved in sprouting angiogenesis         7
## 2 GO:0000103                                   sulfate assimilation         1
## 3 GO:0003964                   RNA-directed DNA polymerase activity       122
## 4 GO:0003676                                   nucleic acid binding       497
## 5 GO:0004829                         threonine-tRNA ligase activity         1
## 6 GO:0001002 RNA polymerase III type 1 promoter sequence-specifi...         1
## 7 GO:0003980 UDP-glucose:glycoprotein glucosyltransferase activi...         1
## 8 GO:0004134                    4-alpha-glucanotransferase activity         1
## 9 GO:0000703 oxidized pyrimidine nucleobase lesion DNA N-glycosy...         1
##   Significant Expected Fisher               type
## 1           2     0.16 0.0098 Biological.Process
## 2           1     0.02 0.0227 Biological.Process
## 3           9     3.16 0.0037 Molecular.Function
## 4          14    12.89 0.0223 Molecular.Function
## 5           1     0.03 0.0259 Molecular.Function
## 6           1     0.03 0.0259 Molecular.Function
## 7           1     0.03 0.0259 Molecular.Function
## 8           1     0.03 0.0259 Molecular.Function
## 9           1     0.03 0.0259 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 147 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	4 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 9:	11 nodes to be scored	(151 eliminated genes)
```

```
## 
## 	 Level 8:	10 nodes to be scored	(163 eliminated genes)
```

```
## 
## 	 Level 7:	12 nodes to be scored	(179 eliminated genes)
```

```
## 
## 	 Level 6:	21 nodes to be scored	(265 eliminated genes)
```

```
## 
## 	 Level 5:	27 nodes to be scored	(487 eliminated genes)
```

```
## 
## 	 Level 4:	26 nodes to be scored	(567 eliminated genes)
```

```
## 
## 	 Level 3:	19 nodes to be scored	(878 eliminated genes)
```

```
## 
## 	 Level 2:	7 nodes to be scored	(1057 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1305 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 88 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	6 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 8:	5 nodes to be scored	(101 eliminated genes)
```

```
## 
## 	 Level 7:	12 nodes to be scored	(396 eliminated genes)
```

```
## 
## 	 Level 6:	17 nodes to be scored	(414 eliminated genes)
```

```
## 
## 	 Level 5:	17 nodes to be scored	(584 eliminated genes)
```

```
## 
## 	 Level 4:	12 nodes to be scored	(826 eliminated genes)
```

```
## 
## 	 Level 3:	11 nodes to be scored	(1432 eliminated genes)
```

```
## 
## 	 Level 2:	4 nodes to be scored	(1666 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2115 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0015969             guanosine tetraphosphate metabolic process         9
## 2 GO:0000122 negative regulation of transcription by RNA polymer...       140
## 3 GO:0003747                    translation release factor activity         1
## 4 GO:0001002 RNA polymerase III type 1 promoter sequence-specifi...         1
## 5 GO:0004315     3-oxoacyl-[acyl-carrier-protein] synthase activity         2
## 6 GO:0003676                                   nucleic acid binding       497
## 7 GO:0004622                             lysophospholipase activity         4
## 8 GO:0000340                      RNA 7-methylguanosine cap binding         4
##   Significant Expected Fisher               type
## 1           2     0.08 0.0027 Biological.Process
## 2           5     1.29 0.0060 Biological.Process
## 3           1     0.01 0.0110 Molecular.Function
## 4           1     0.01 0.0110 Molecular.Function
## 5           1     0.02 0.0220 Molecular.Function
## 6          14     5.55 0.0420 Molecular.Function
## 7           1     0.04 0.0440 Molecular.Function
## 8           1     0.04 0.0440 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 357 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(11 eliminated genes)
```

```
## 
## 	 Level 11:	7 nodes to be scored	(160 eliminated genes)
```

```
## 
## 	 Level 10:	12 nodes to be scored	(203 eliminated genes)
```

```
## 
## 	 Level 9:	22 nodes to be scored	(213 eliminated genes)
```

```
## 
## 	 Level 8:	27 nodes to be scored	(308 eliminated genes)
```

```
## 
## 	 Level 7:	44 nodes to be scored	(359 eliminated genes)
```

```
## 
## 	 Level 6:	63 nodes to be scored	(524 eliminated genes)
```

```
## 
## 	 Level 5:	76 nodes to be scored	(806 eliminated genes)
```

```
## 
## 	 Level 4:	50 nodes to be scored	(968 eliminated genes)
```

```
## 
## 	 Level 3:	36 nodes to be scored	(1187 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(1334 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1402 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 288 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 9:	18 nodes to be scored	(13 eliminated genes)
```

```
## 
## 	 Level 8:	26 nodes to be scored	(151 eliminated genes)
```

```
## 
## 	 Level 7:	39 nodes to be scored	(500 eliminated genes)
```

```
## 
## 	 Level 6:	52 nodes to be scored	(619 eliminated genes)
```

```
## 
## 	 Level 5:	54 nodes to be scored	(942 eliminated genes)
```

```
## 
## 	 Level 4:	49 nodes to be scored	(1357 eliminated genes)
```

```
## 
## 	 Level 3:	28 nodes to be scored	(2029 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(2359 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2634 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0009734                      auxin-activated signaling pathway         4
## 2  GO:0000103                                   sulfate assimilation         1
## 3  GO:0001731         formation of translation preinitiation complex         1
## 4  GO:0001922                                 B-1 B cell homeostasis         1
## 5  GO:0000390                       spliceosomal complex disassembly         1
## 6  GO:0002230 positive regulation of defense response to virus by...         1
## 7  GO:0006884                                cell volume homeostasis         1
## 8  GO:0005543                                   phospholipid binding         8
## 9  GO:0000987    cis-regulatory region sequence-specific DNA binding       112
## 10 GO:0003676                                   nucleic acid binding       497
## 11 GO:0005044                            scavenger receptor activity        13
##    Significant Expected  Fisher               type
## 1            2     0.18 0.01100 Biological.Process
## 2            1     0.05 0.04500 Biological.Process
## 3            1     0.05 0.04500 Biological.Process
## 4            1     0.05 0.04500 Biological.Process
## 5            1     0.05 0.04500 Biological.Process
## 6            1     0.05 0.04500 Biological.Process
## 7            1     0.05 0.04500 Biological.Process
## 8            4     0.52 0.00099 Molecular.Function
## 9            8     7.22 0.03028 Molecular.Function
## 10          36    32.05 0.03676 Molecular.Function
## 11           3     0.84 0.04668 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 427 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 11:	12 nodes to be scored	(146 eliminated genes)
```

```
## 
## 	 Level 10:	21 nodes to be scored	(207 eliminated genes)
```

```
## 
## 	 Level 9:	33 nodes to be scored	(224 eliminated genes)
```

```
## 
## 	 Level 8:	38 nodes to be scored	(306 eliminated genes)
```

```
## 
## 	 Level 7:	55 nodes to be scored	(380 eliminated genes)
```

```
## 
## 	 Level 6:	78 nodes to be scored	(613 eliminated genes)
```

```
## 
## 	 Level 5:	84 nodes to be scored	(917 eliminated genes)
```

```
## 
## 	 Level 4:	51 nodes to be scored	(1030 eliminated genes)
```

```
## 
## 	 Level 3:	32 nodes to be scored	(1221 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1285 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1379 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 302 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	13 nodes to be scored	(10 eliminated genes)
```

```
## 
## 	 Level 8:	21 nodes to be scored	(145 eliminated genes)
```

```
## 
## 	 Level 7:	45 nodes to be scored	(464 eliminated genes)
```

```
## 
## 	 Level 6:	65 nodes to be scored	(596 eliminated genes)
```

```
## 
## 	 Level 5:	63 nodes to be scored	(925 eliminated genes)
```

```
## 
## 	 Level 4:	52 nodes to be scored	(1402 eliminated genes)
```

```
## 
## 	 Level 3:	25 nodes to be scored	(2053 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(2322 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2606 eliminated genes)
```

```
##        GO.ID                                          Term Annotated
## 1 GO:0000050                                    urea cycle         2
## 2 GO:0006487                protein N-linked glycosylation        19
## 3 GO:0000774    adenyl-nucleotide exchange factor activity         2
## 4 GO:0005302 L-tyrosine transmembrane transporter activity         9
## 5 GO:0004560                   alpha-L-fucosidase activity         6
##   Significant Expected Fisher               type
## 1           2     0.12 0.0036 Biological.Process
## 2           4     1.14 0.0237 Biological.Process
## 3           2     0.12 0.0037 Molecular.Function
## 4           3     0.55 0.0144 Molecular.Function
## 5           2     0.37 0.0475 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 762 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	10 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 12:	14 nodes to be scored	(16 eliminated genes)
```

```
## 
## 	 Level 11:	25 nodes to be scored	(172 eliminated genes)
```

```
## 
## 	 Level 10:	40 nodes to be scored	(231 eliminated genes)
```

```
## 
## 	 Level 9:	71 nodes to be scored	(285 eliminated genes)
```

```
## 
## 	 Level 8:	83 nodes to be scored	(423 eliminated genes)
```

```
## 
## 	 Level 7:	104 nodes to be scored	(576 eliminated genes)
```

```
## 
## 	 Level 6:	132 nodes to be scored	(791 eliminated genes)
```

```
## 
## 	 Level 5:	133 nodes to be scored	(1077 eliminated genes)
```

```
## 
## 	 Level 4:	80 nodes to be scored	(1162 eliminated genes)
```

```
## 
## 	 Level 3:	52 nodes to be scored	(1319 eliminated genes)
```

```
## 
## 	 Level 2:	13 nodes to be scored	(1357 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1409 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 467 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	9 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 9:	28 nodes to be scored	(15 eliminated genes)
```

```
## 
## 	 Level 8:	37 nodes to be scored	(164 eliminated genes)
```

```
## 
## 	 Level 7:	76 nodes to be scored	(521 eliminated genes)
```

```
## 
## 	 Level 6:	105 nodes to be scored	(660 eliminated genes)
```

```
## 
## 	 Level 5:	80 nodes to be scored	(1086 eliminated genes)
```

```
## 
## 	 Level 4:	76 nodes to be scored	(1584 eliminated genes)
```

```
## 
## 	 Level 3:	38 nodes to be scored	(2183 eliminated genes)
```

```
## 
## 	 Level 2:	13 nodes to be scored	(2476 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2681 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000398                         mRNA splicing, via spliceosome        63
## 2  GO:0000165                                           MAPK cascade        35
## 3  GO:0002218                   activation of innate immune response        15
## 4  GO:0002674     negative regulation of acute inflammatory response         4
## 5  GO:0003341                                        cilium movement        20
## 6  GO:0005524                                            ATP binding       263
## 7  GO:0004364                       glutathione transferase activity         4
## 8  GO:0000030                           mannosyltransferase activity        12
## 9  GO:0004675 transmembrane receptor protein serine/threonine kin...         3
## 10 GO:0003723                                            RNA binding       128
## 11 GO:0005198                           structural molecule activity        54
## 12 GO:0000146                           microfilament motor activity         9
## 13 GO:0005085             guanyl-nucleotide exchange factor activity        12
## 14 GO:0005229 intracellular calcium activated chloride channel ac...         4
## 15 GO:0000340                      RNA 7-methylguanosine cap binding         4
##    Significant Expected  Fisher               type
## 1           25    14.24 0.00170 Biological.Process
## 2           16     7.91 0.00190 Biological.Process
## 3            7     3.39 0.03350 Biological.Process
## 4            3     0.90 0.03820 Biological.Process
## 5            9     4.52 0.04420 Biological.Process
## 6           87    62.81 0.00024 Molecular.Function
## 7            4     0.96 0.00323 Molecular.Function
## 8            9     2.87 0.01020 Molecular.Function
## 9            3     0.72 0.01358 Molecular.Function
## 10          39    30.57 0.02325 Molecular.Function
## 11          21    12.90 0.03900 Molecular.Function
## 12           5     2.15 0.04048 Molecular.Function
## 13           6     2.87 0.04399 Molecular.Function
## 14           3     0.96 0.04461 Molecular.Function
## 15           3     0.96 0.04461 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 385 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	7 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	13 nodes to be scored	(156 eliminated genes)
```

```
## 
## 	 Level 10:	18 nodes to be scored	(209 eliminated genes)
```

```
## 
## 	 Level 9:	26 nodes to be scored	(239 eliminated genes)
```

```
## 
## 	 Level 8:	31 nodes to be scored	(333 eliminated genes)
```

```
## 
## 	 Level 7:	47 nodes to be scored	(408 eliminated genes)
```

```
## 
## 	 Level 6:	67 nodes to be scored	(597 eliminated genes)
```

```
## 
## 	 Level 5:	80 nodes to be scored	(903 eliminated genes)
```

```
## 
## 	 Level 4:	48 nodes to be scored	(1005 eliminated genes)
```

```
## 
## 	 Level 3:	33 nodes to be scored	(1173 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1285 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1377 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 255 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	5 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 9:	11 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 8:	16 nodes to be scored	(155 eliminated genes)
```

```
## 
## 	 Level 7:	32 nodes to be scored	(478 eliminated genes)
```

```
## 
## 	 Level 6:	50 nodes to be scored	(597 eliminated genes)
```

```
## 
## 	 Level 5:	50 nodes to be scored	(940 eliminated genes)
```

```
## 
## 	 Level 4:	47 nodes to be scored	(1411 eliminated genes)
```

```
## 
## 	 Level 3:	30 nodes to be scored	(2050 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(2354 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2642 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000165                                           MAPK cascade        35
## 2  GO:0003341                                        cilium movement        20
## 3  GO:0019700                  organic phosphonate catabolic process        12
## 4  GO:0000462 maturation of SSU-rRNA from tricistronic rRNA trans...         5
## 5  GO:0003682                                      chromatin binding        13
## 6  GO:0001409 guanine nucleotide transmembrane transporter activi...        30
## 7  GO:0001965                        G-protein alpha-subunit binding        16
## 8  GO:0001786                             phosphatidylserine binding         4
## 9  GO:0003964                   RNA-directed DNA polymerase activity       122
## 10 GO:0004252                     serine-type endopeptidase activity        53
## 11 GO:0005524                                            ATP binding       263
## 12 GO:0003756                   protein disulfide isomerase activity         5
##    Significant Expected Fisher               type
## 1            7     2.01 0.0029 Biological.Process
## 2            5     1.15 0.0043 Biological.Process
## 3            3     0.69 0.0275 Biological.Process
## 4            2     0.29 0.0291 Biological.Process
## 5            4     0.95 0.0120 Molecular.Function
## 6            6     2.19 0.0190 Molecular.Function
## 7            4     1.17 0.0250 Molecular.Function
## 8            2     0.29 0.0290 Molecular.Function
## 9           15     8.92 0.0300 Molecular.Function
## 10           8     3.88 0.0360 Molecular.Function
## 11          27    19.23 0.0400 Molecular.Function
## 12           2     0.37 0.0460 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 470 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 12:	9 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 11:	16 nodes to be scored	(149 eliminated genes)
```

```
## 
## 	 Level 10:	22 nodes to be scored	(213 eliminated genes)
```

```
## 
## 	 Level 9:	36 nodes to be scored	(232 eliminated genes)
```

```
## 
## 	 Level 8:	43 nodes to be scored	(348 eliminated genes)
```

```
## 
## 	 Level 7:	60 nodes to be scored	(442 eliminated genes)
```

```
## 
## 	 Level 6:	77 nodes to be scored	(625 eliminated genes)
```

```
## 
## 	 Level 5:	88 nodes to be scored	(925 eliminated genes)
```

```
## 
## 	 Level 4:	61 nodes to be scored	(1010 eliminated genes)
```

```
## 
## 	 Level 3:	41 nodes to be scored	(1241 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(1358 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1402 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 231 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	10 nodes to be scored	(9 eliminated genes)
```

```
## 
## 	 Level 8:	14 nodes to be scored	(143 eliminated genes)
```

```
## 
## 	 Level 7:	28 nodes to be scored	(454 eliminated genes)
```

```
## 
## 	 Level 6:	48 nodes to be scored	(554 eliminated genes)
```

```
## 
## 	 Level 5:	48 nodes to be scored	(894 eliminated genes)
```

```
## 
## 	 Level 4:	39 nodes to be scored	(1296 eliminated genes)
```

```
## 
## 	 Level 3:	28 nodes to be scored	(2008 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(2260 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2659 eliminated genes)
```

```
##         GO.ID                                         Term Annotated
## 1  GO:0000165                                 MAPK cascade        35
## 2  GO:0008218                              bioluminescence        10
## 3  GO:0003341                              cilium movement        20
## 4  GO:0000038 very long-chain fatty acid metabolic process         9
## 5  GO:0006886              intracellular protein transport         5
## 6  GO:0005524                                  ATP binding       263
## 7  GO:0003964         RNA-directed DNA polymerase activity       122
## 8  GO:0004342   glucosamine-6-phosphate deaminase activity         2
## 9  GO:0005198                 structural molecule activity        54
## 10 GO:0000026       alpha-1,2-mannosyltransferase activity         3
## 11 GO:0001786                   phosphatidylserine binding         4
## 12 GO:0005201  extracellular matrix structural constituent        17
## 13 GO:0002020                             protease binding         5
##    Significant Expected   Fisher               type
## 1           10     2.68 0.000160 Biological.Process
## 2            5     0.77 0.000440 Biological.Process
## 3            5     1.53 0.014660 Biological.Process
## 4            3     0.69 0.026070 Biological.Process
## 5            2     0.38 0.049820 Biological.Process
## 6           36    18.95 0.000071 Molecular.Function
## 7           18     8.79 0.002300 Molecular.Function
## 8            2     0.14 0.005200 Molecular.Function
## 9           11     3.89 0.005400 Molecular.Function
## 10           2     0.22 0.014800 Molecular.Function
## 11           2     0.29 0.028100 Molecular.Function
## 12           4     1.22 0.029600 Molecular.Function
## 13           2     0.36 0.044700 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 318 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(5 eliminated genes)
```

```
## 
## 	 Level 12:	7 nodes to be scored	(9 eliminated genes)
```

```
## 
## 	 Level 11:	11 nodes to be scored	(153 eliminated genes)
```

```
## 
## 	 Level 10:	14 nodes to be scored	(213 eliminated genes)
```

```
## 
## 	 Level 9:	26 nodes to be scored	(234 eliminated genes)
```

```
## 
## 	 Level 8:	28 nodes to be scored	(294 eliminated genes)
```

```
## 
## 	 Level 7:	34 nodes to be scored	(359 eliminated genes)
```

```
## 
## 	 Level 6:	48 nodes to be scored	(473 eliminated genes)
```

```
## 
## 	 Level 5:	61 nodes to be scored	(684 eliminated genes)
```

```
## 
## 	 Level 4:	40 nodes to be scored	(833 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(1068 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(1252 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1355 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 140 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	7 nodes to be scored	(142 eliminated genes)
```

```
## 
## 	 Level 7:	17 nodes to be scored	(438 eliminated genes)
```

```
## 
## 	 Level 6:	29 nodes to be scored	(482 eliminated genes)
```

```
## 
## 	 Level 5:	31 nodes to be scored	(832 eliminated genes)
```

```
## 
## 	 Level 4:	24 nodes to be scored	(1111 eliminated genes)
```

```
## 
## 	 Level 3:	17 nodes to be scored	(1744 eliminated genes)
```

```
## 
## 	 Level 2:	7 nodes to be scored	(1986 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2521 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0002064                            epithelial cell development         4
## 2  GO:0001945                               lymph vessel development         5
## 3  GO:0006836                             neurotransmitter transport         6
## 4  GO:0002314                 germinal center B cell differentiation         1
## 5  GO:0004252                     serine-type endopeptidase activity        53
## 6  GO:0001640 adenylate cyclase inhibiting G protein-coupled glut...         9
## 7  GO:0046982                    protein heterodimerization activity         1
## 8  GO:0010181                                            FMN binding         1
## 9  GO:0003975 UDP-N-acetylglucosamine-dolichyl-phosphate N-acetyl...         1
## 10 GO:0000978 RNA polymerase II cis-regulatory region sequence-sp...       100
## 11 GO:0004658                     propionyl-CoA carboxylase activity         2
## 12 GO:0004735             pyrroline-5-carboxylate reductase activity         2
##    Significant Expected Fisher               type
## 1            2     0.12 0.0050 Biological.Process
## 2            2     0.15 0.0082 Biological.Process
## 3            2     0.18 0.0120 Biological.Process
## 4            1     0.03 0.0298 Biological.Process
## 5            6     1.20 0.0011 Molecular.Function
## 6            2     0.20 0.0165 Molecular.Function
## 7            1     0.02 0.0227 Molecular.Function
## 8            1     0.02 0.0227 Molecular.Function
## 9            1     0.02 0.0227 Molecular.Function
## 10           6     2.27 0.0243 Molecular.Function
## 11           1     0.05 0.0449 Molecular.Function
## 12           1     0.05 0.0449 Molecular.Function
##  Factor w/ 2 levels "0","1": 2 1 1 2 1 2 1 1 1 2 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 290 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	9 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	13 nodes to be scored	(204 eliminated genes)
```

```
## 
## 	 Level 9:	24 nodes to be scored	(237 eliminated genes)
```

```
## 
## 	 Level 8:	21 nodes to be scored	(296 eliminated genes)
```

```
## 
## 	 Level 7:	29 nodes to be scored	(352 eliminated genes)
```

```
## 
## 	 Level 6:	52 nodes to be scored	(454 eliminated genes)
```

```
## 
## 	 Level 5:	54 nodes to be scored	(669 eliminated genes)
```

```
## 
## 	 Level 4:	42 nodes to be scored	(857 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(1078 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1207 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1385 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 185 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	3 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 9:	10 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 8:	10 nodes to be scored	(110 eliminated genes)
```

```
## 
## 	 Level 7:	19 nodes to be scored	(462 eliminated genes)
```

```
## 
## 	 Level 6:	32 nodes to be scored	(547 eliminated genes)
```

```
## 
## 	 Level 5:	39 nodes to be scored	(814 eliminated genes)
```

```
## 
## 	 Level 4:	36 nodes to be scored	(1132 eliminated genes)
```

```
## 
## 	 Level 3:	25 nodes to be scored	(1984 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(2264 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2611 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0002933                                    lipid hydroxylation         3
## 2  GO:0006368 transcription elongation by RNA polymerase II promo...         1
## 3  GO:0000335     negative regulation of transposition, DNA-mediated         1
## 4  GO:0015969             guanosine tetraphosphate metabolic process         9
## 5  GO:0004972                       NMDA glutamate receptor activity         3
## 6  GO:0005198                           structural molecule activity        54
## 7  GO:0005245                 voltage-gated calcium channel activity         7
## 8  GO:0005509                                    calcium ion binding        66
## 9  GO:0015101      organic cation transmembrane transporter activity         1
## 10 GO:0003909                                    DNA ligase activity         1
## 11 GO:0004441       inositol-1,4-bisphosphate 1-phosphatase activity         1
## 12 GO:0000400                          four-way junction DNA binding         1
## 13 GO:0005542                                     folic acid binding        10
##    Significant Expected Fisher               type
## 1            2     0.11 0.0038 Biological.Process
## 2            1     0.04 0.0361 Biological.Process
## 3            1     0.04 0.0361 Biological.Process
## 4            2     0.33 0.0392 Biological.Process
## 5            2     0.11 0.0037 Molecular.Function
## 6            6     1.93 0.0090 Molecular.Function
## 7            2     0.25 0.0235 Molecular.Function
## 8            6     2.35 0.0285 Molecular.Function
## 9            1     0.04 0.0357 Molecular.Function
## 10           1     0.04 0.0357 Molecular.Function
## 11           1     0.04 0.0357 Molecular.Function
## 12           1     0.04 0.0357 Molecular.Function
## 13           2     0.36 0.0470 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 503 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	9 nodes to be scored	(15 eliminated genes)
```

```
## 
## 	 Level 11:	14 nodes to be scored	(165 eliminated genes)
```

```
## 
## 	 Level 10:	20 nodes to be scored	(224 eliminated genes)
```

```
## 
## 	 Level 9:	36 nodes to be scored	(252 eliminated genes)
```

```
## 
## 	 Level 8:	48 nodes to be scored	(357 eliminated genes)
```

```
## 
## 	 Level 7:	65 nodes to be scored	(456 eliminated genes)
```

```
## 
## 	 Level 6:	91 nodes to be scored	(612 eliminated genes)
```

```
## 
## 	 Level 5:	93 nodes to be scored	(873 eliminated genes)
```

```
## 
## 	 Level 4:	62 nodes to be scored	(974 eliminated genes)
```

```
## 
## 	 Level 3:	44 nodes to be scored	(1280 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(1339 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1406 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 294 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	15 nodes to be scored	(9 eliminated genes)
```

```
## 
## 	 Level 8:	20 nodes to be scored	(147 eliminated genes)
```

```
## 
## 	 Level 7:	56 nodes to be scored	(494 eliminated genes)
```

```
## 
## 	 Level 6:	65 nodes to be scored	(605 eliminated genes)
```

```
## 
## 	 Level 5:	54 nodes to be scored	(1010 eliminated genes)
```

```
## 
## 	 Level 4:	43 nodes to be scored	(1430 eliminated genes)
```

```
## 
## 	 Level 3:	26 nodes to be scored	(2022 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(2291 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2587 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0002674     negative regulation of acute inflammatory response         4
## 2 GO:0001818             negative regulation of cytokine production        18
## 3 GO:0001732 formation of cytoplasmic translation initiation com...         6
## 4 GO:0005524                                            ATP binding       263
## 5 GO:0003964                   RNA-directed DNA polymerase activity       122
## 6 GO:0004177                                aminopeptidase activity         7
## 7 GO:0003682                                      chromatin binding        13
## 8 GO:0004623                              phospholipase A2 activity         4
## 9 GO:0000340                      RNA 7-methylguanosine cap binding         4
##   Significant Expected Fisher               type
## 1           3     0.42 0.0042 Biological.Process
## 2           6     1.89 0.0077 Biological.Process
## 3           3     0.63 0.0178 Biological.Process
## 4          39    24.82 0.0020 Molecular.Function
## 5          21    11.51 0.0041 Molecular.Function
## 6           3     0.66 0.0218 Molecular.Function
## 7           4     1.23 0.0279 Molecular.Function
## 8           2     0.38 0.0468 Molecular.Function
## 9           2     0.38 0.0468 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 602 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	6 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 12:	13 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 11:	22 nodes to be scored	(147 eliminated genes)
```

```
## 
## 	 Level 10:	34 nodes to be scored	(229 eliminated genes)
```

```
## 
## 	 Level 9:	52 nodes to be scored	(258 eliminated genes)
```

```
## 
## 	 Level 8:	62 nodes to be scored	(368 eliminated genes)
```

```
## 
## 	 Level 7:	80 nodes to be scored	(492 eliminated genes)
```

```
## 
## 	 Level 6:	103 nodes to be scored	(692 eliminated genes)
```

```
## 
## 	 Level 5:	102 nodes to be scored	(986 eliminated genes)
```

```
## 
## 	 Level 4:	65 nodes to be scored	(1115 eliminated genes)
```

```
## 
## 	 Level 3:	47 nodes to be scored	(1276 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(1340 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1406 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 254 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 9:	12 nodes to be scored	(13 eliminated genes)
```

```
## 
## 	 Level 8:	19 nodes to be scored	(146 eliminated genes)
```

```
## 
## 	 Level 7:	35 nodes to be scored	(468 eliminated genes)
```

```
## 
## 	 Level 6:	52 nodes to be scored	(541 eliminated genes)
```

```
## 
## 	 Level 5:	49 nodes to be scored	(907 eliminated genes)
```

```
## 
## 	 Level 4:	41 nodes to be scored	(1323 eliminated genes)
```

```
## 
## 	 Level 3:	26 nodes to be scored	(1973 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(2269 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2622 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000184 nuclear-transcribed mRNA catabolic process, nonsens...        10
## 2  GO:0002064                            epithelial cell development         4
## 3  GO:0001782                                     B cell homeostasis         7
## 4  GO:0003341                                        cilium movement        20
## 5  GO:0002244          hematopoietic progenitor cell differentiation         4
## 6  GO:0000723                                   telomere maintenance         4
## 7  GO:0003676                                   nucleic acid binding       497
## 8  GO:0001409 guanine nucleotide transmembrane transporter activi...        30
## 9  GO:0003964                   RNA-directed DNA polymerase activity       122
## 10 GO:0005509                                    calcium ion binding        66
## 11 GO:0003824                                     catalytic activity      1042
## 12 GO:0005085             guanyl-nucleotide exchange factor activity        12
## 13 GO:0004972                       NMDA glutamate receptor activity         3
## 14 GO:0005507                                     copper ion binding        18
## 15 GO:0003723                                            RNA binding       128
##    Significant Expected  Fisher               type
## 1            5     0.96 0.00130 Biological.Process
## 2            3     0.39 0.00330 Biological.Process
## 3            3     0.67 0.02290 Biological.Process
## 4            6     1.93 0.02890 Biological.Process
## 5            2     0.39 0.04860 Biological.Process
## 6            2     0.39 0.04860 Biological.Process
## 7           64    50.85 0.00057 Molecular.Function
## 8            8     3.07 0.00853 Molecular.Function
## 9           21    12.48 0.01051 Molecular.Function
## 10          13     6.75 0.01418 Molecular.Function
## 11          86   106.60 0.02051 Molecular.Function
## 12           4     1.23 0.02735 Molecular.Function
## 13           2     0.31 0.02918 Molecular.Function
## 14           5     1.84 0.03031 Molecular.Function
## 15          20    13.10 0.03108 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 712 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	8 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 12:	12 nodes to be scored	(22 eliminated genes)
```

```
## 
## 	 Level 11:	26 nodes to be scored	(173 eliminated genes)
```

```
## 
## 	 Level 10:	41 nodes to be scored	(234 eliminated genes)
```

```
## 
## 	 Level 9:	71 nodes to be scored	(294 eliminated genes)
```

```
## 
## 	 Level 8:	80 nodes to be scored	(400 eliminated genes)
```

```
## 
## 	 Level 7:	99 nodes to be scored	(513 eliminated genes)
```

```
## 
## 	 Level 6:	118 nodes to be scored	(721 eliminated genes)
```

```
## 
## 	 Level 5:	117 nodes to be scored	(996 eliminated genes)
```

```
## 
## 	 Level 4:	72 nodes to be scored	(1127 eliminated genes)
```

```
## 
## 	 Level 3:	48 nodes to be scored	(1317 eliminated genes)
```

```
## 
## 	 Level 2:	13 nodes to be scored	(1367 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1408 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 444 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	5 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 10:	11 nodes to be scored	(7 eliminated genes)
```

```
## 
## 	 Level 9:	24 nodes to be scored	(18 eliminated genes)
```

```
## 
## 	 Level 8:	41 nodes to be scored	(166 eliminated genes)
```

```
## 
## 	 Level 7:	69 nodes to be scored	(509 eliminated genes)
```

```
## 
## 	 Level 6:	93 nodes to be scored	(675 eliminated genes)
```

```
## 
## 	 Level 5:	77 nodes to be scored	(1044 eliminated genes)
```

```
## 
## 	 Level 4:	69 nodes to be scored	(1501 eliminated genes)
```

```
## 
## 	 Level 3:	36 nodes to be scored	(2164 eliminated genes)
```

```
## 
## 	 Level 2:	13 nodes to be scored	(2486 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2679 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0003341                                        cilium movement        20
## 2  GO:0001933         negative regulation of protein phosphorylation         5
## 3  GO:0006886                        intracellular protein transport         5
## 4  GO:0001934         positive regulation of protein phosphorylation         4
## 5  GO:0002244          hematopoietic progenitor cell differentiation         4
## 6  GO:0002042      cell migration involved in sprouting angiogenesis         7
## 7  GO:0007224                           smoothened signaling pathway         2
## 8  GO:0001895                                     retina homeostasis         2
## 9  GO:0005524                                            ATP binding       263
## 10 GO:0004715 non-membrane spanning protein tyrosine kinase activ...         6
## 11 GO:0005388                    P-type calcium transporter activity         4
## 12 GO:0003964                   RNA-directed DNA polymerase activity       122
## 13 GO:0003676                                   nucleic acid binding       497
## 14 GO:0004518                                      nuclease activity        30
## 15 GO:0001965                        G-protein alpha-subunit binding        16
## 16 GO:0001786                             phosphatidylserine binding         4
## 17 GO:0005198                           structural molecule activity        54
## 18 GO:0003987                            acetate-CoA ligase activity         2
## 19 GO:0004100                               chitin synthase activity         2
## 20 GO:0004579 dolichyl-diphosphooligosaccharide-protein glycotran...         2
##    Significant Expected   Fisher               type
## 1           12     3.61 0.000031 Biological.Process
## 2            4     0.90 0.004500 Biological.Process
## 3            4     0.90 0.005800 Biological.Process
## 4            3     0.72 0.020200 Biological.Process
## 5            3     0.72 0.020200 Biological.Process
## 6            4     1.27 0.023100 Biological.Process
## 7            2     0.36 0.032600 Biological.Process
## 8            2     0.36 0.032600 Biological.Process
## 9           72    51.07 0.000610 Molecular.Function
## 10           5     1.16 0.001370 Molecular.Function
## 11           4     0.78 0.001410 Molecular.Function
## 12          37    23.69 0.002110 Molecular.Function
## 13         104    96.50 0.005160 Molecular.Function
## 14           9     5.82 0.015280 Molecular.Function
## 15           7     3.11 0.022520 Molecular.Function
## 16           3     0.78 0.024920 Molecular.Function
## 17          14    10.48 0.030040 Molecular.Function
## 18           2     0.39 0.037640 Molecular.Function
## 19           2     0.39 0.037640 Molecular.Function
## 20           2     0.39 0.037640 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 370 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	6 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 12:	8 nodes to be scored	(17 eliminated genes)
```

```
## 
## 	 Level 11:	16 nodes to be scored	(165 eliminated genes)
```

```
## 
## 	 Level 10:	21 nodes to be scored	(212 eliminated genes)
```

```
## 
## 	 Level 9:	37 nodes to be scored	(244 eliminated genes)
```

```
## 
## 	 Level 8:	32 nodes to be scored	(314 eliminated genes)
```

```
## 
## 	 Level 7:	42 nodes to be scored	(373 eliminated genes)
```

```
## 
## 	 Level 6:	58 nodes to be scored	(483 eliminated genes)
```

```
## 
## 	 Level 5:	67 nodes to be scored	(732 eliminated genes)
```

```
## 
## 	 Level 4:	42 nodes to be scored	(878 eliminated genes)
```

```
## 
## 	 Level 3:	26 nodes to be scored	(1042 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1182 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1311 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 216 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	3 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 9:	10 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 8:	14 nodes to be scored	(143 eliminated genes)
```

```
## 
## 	 Level 7:	31 nodes to be scored	(473 eliminated genes)
```

```
## 
## 	 Level 6:	43 nodes to be scored	(598 eliminated genes)
```

```
## 
## 	 Level 5:	47 nodes to be scored	(951 eliminated genes)
```

```
## 
## 	 Level 4:	36 nodes to be scored	(1298 eliminated genes)
```

```
## 
## 	 Level 3:	20 nodes to be scored	(1937 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(2179 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2564 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0002064                            epithelial cell development         4
## 2  GO:0000278                                     mitotic cell cycle       160
## 3  GO:0003179                              heart valve morphogenesis         4
## 4  GO:0001701                         in utero embryonic development        15
## 5  GO:0002218                   activation of innate immune response        15
## 6  GO:0001732 formation of cytoplasmic translation initiation com...         6
## 7  GO:0000712      resolution of meiotic recombination intermediates         1
## 8  GO:0001771                        immunological synapse formation         1
## 9  GO:0000737                 DNA catabolic process, endonucleolytic         1
## 10 GO:0002314                 germinal center B cell differentiation         1
## 11 GO:0002225 positive regulation of antimicrobial peptide produc...         1
## 12 GO:0001573                          ganglioside metabolic process         1
## 13 GO:0000472 endonucleolytic cleavage to generate mature 5'-end ...         1
## 14 GO:0006513                             protein monoubiquitination         1
## 15 GO:0000987    cis-regulatory region sequence-specific DNA binding       112
## 16 GO:0004325                                ferrochelatase activity         1
## 17 GO:0004458          D-lactate dehydrogenase (cytochrome) activity         1
## 18 GO:0003989                        acetyl-CoA carboxylase activity         1
## 19 GO:0004729 oxygen-dependent protoporphyrinogen oxidase activit...         1
## 20 GO:0004332                fructose-bisphosphate aldolase activity         1
## 21 GO:0008957              phenylacetaldehyde dehydrogenase activity         1
## 22 GO:0010181                                            FMN binding         1
## 23 GO:0004818                         glutamate-tRNA ligase activity         1
## 24 GO:0004368 glycerol-3-phosphate dehydrogenase (quinone) activi...         1
## 25 GO:0005220 inositol 1,4,5-trisphosphate-sensitive calcium-rele...         1
## 26 GO:0004408                     holocytochrome-c synthase activity         1
## 27 GO:0004802                                 transketolase activity         1
## 28 GO:0050218                         propionate-CoA ligase activity         1
## 29 GO:0003960                       NADPH:quinone reductase activity         1
##    Significant Expected  Fisher               type
## 1            3     0.17 0.00030 Biological.Process
## 2            9     6.92 0.00330 Biological.Process
## 3            2     0.17 0.01040 Biological.Process
## 4            3     0.65 0.02410 Biological.Process
## 5            3     0.65 0.02410 Biological.Process
## 6            2     0.26 0.02470 Biological.Process
## 7            1     0.04 0.04320 Biological.Process
## 8            1     0.04 0.04320 Biological.Process
## 9            1     0.04 0.04320 Biological.Process
## 10           1     0.04 0.04320 Biological.Process
## 11           1     0.04 0.04320 Biological.Process
## 12           1     0.04 0.04320 Biological.Process
## 13           1     0.04 0.04320 Biological.Process
## 14           1     0.04 0.04320 Biological.Process
## 15           7     4.20 0.00075 Molecular.Function
## 16           1     0.04 0.03746 Molecular.Function
## 17           1     0.04 0.03746 Molecular.Function
## 18           1     0.04 0.03746 Molecular.Function
## 19           1     0.04 0.03746 Molecular.Function
## 20           1     0.04 0.03746 Molecular.Function
## 21           1     0.04 0.03746 Molecular.Function
## 22           1     0.04 0.03746 Molecular.Function
## 23           1     0.04 0.03746 Molecular.Function
## 24           1     0.04 0.03746 Molecular.Function
## 25           1     0.04 0.03746 Molecular.Function
## 26           1     0.04 0.03746 Molecular.Function
## 27           1     0.04 0.03746 Molecular.Function
## 28           1     0.04 0.03746 Molecular.Function
## 29           1     0.04 0.03746 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 373 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	8 nodes to be scored	(15 eliminated genes)
```

```
## 
## 	 Level 11:	13 nodes to be scored	(164 eliminated genes)
```

```
## 
## 	 Level 10:	19 nodes to be scored	(216 eliminated genes)
```

```
## 
## 	 Level 9:	27 nodes to be scored	(235 eliminated genes)
```

```
## 
## 	 Level 8:	35 nodes to be scored	(320 eliminated genes)
```

```
## 
## 	 Level 7:	48 nodes to be scored	(386 eliminated genes)
```

```
## 
## 	 Level 6:	60 nodes to be scored	(502 eliminated genes)
```

```
## 
## 	 Level 5:	71 nodes to be scored	(780 eliminated genes)
```

```
## 
## 	 Level 4:	44 nodes to be scored	(893 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(1133 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1266 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1360 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 194 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 10:	5 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 9:	9 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 8:	13 nodes to be scored	(157 eliminated genes)
```

```
## 
## 	 Level 7:	29 nodes to be scored	(471 eliminated genes)
```

```
## 
## 	 Level 6:	37 nodes to be scored	(570 eliminated genes)
```

```
## 
## 	 Level 5:	39 nodes to be scored	(900 eliminated genes)
```

```
## 
## 	 Level 4:	28 nodes to be scored	(1235 eliminated genes)
```

```
## 
## 	 Level 3:	20 nodes to be scored	(1946 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(2165 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2432 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000045                                 autophagosome assembly         7
## 2  GO:0001558                              regulation of cell growth         3
## 3  GO:0001960 negative regulation of cytokine-mediated signaling ...         1
## 4  GO:0001573                          ganglioside metabolic process         1
## 5  GO:0007175 negative regulation of epidermal growth factor-acti...         1
## 6  GO:0003964                   RNA-directed DNA polymerase activity       122
## 7  GO:0005044                            scavenger receptor activity        13
## 8  GO:0005509                                    calcium ion binding        66
## 9  GO:0005245                 voltage-gated calcium channel activity         7
## 10 GO:0005324             long-chain fatty acid transporter activity         1
## 11 GO:0004305                           ethanolamine kinase activity         1
## 12 GO:0005536                                        glucose binding         1
## 13 GO:0004492               methylmalonyl-CoA decarboxylase activity         1
## 14 GO:0004321                       fatty-acyl-CoA synthase activity         1
## 15 GO:0002134                                            UTP binding         1
##    Significant Expected   Fisher               type
## 1            3     0.28 0.002000 Biological.Process
## 2            2     0.12 0.004700 Biological.Process
## 3            1     0.04 0.040400 Biological.Process
## 4            1     0.04 0.040400 Biological.Process
## 5            1     0.04 0.040400 Biological.Process
## 6           17     5.76 0.000038 Molecular.Function
## 7            3     0.61 0.021000 Molecular.Function
## 8            7     3.11 0.034000 Molecular.Function
## 9            2     0.33 0.040000 Molecular.Function
## 10           1     0.05 0.047000 Molecular.Function
## 11           1     0.05 0.047000 Molecular.Function
## 12           1     0.05 0.047000 Molecular.Function
## 13           1     0.05 0.047000 Molecular.Function
## 14           1     0.05 0.047000 Molecular.Function
## 15           1     0.05 0.047000 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 488 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	8 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 11:	14 nodes to be scored	(149 eliminated genes)
```

```
## 
## 	 Level 10:	24 nodes to be scored	(212 eliminated genes)
```

```
## 
## 	 Level 9:	39 nodes to be scored	(232 eliminated genes)
```

```
## 
## 	 Level 8:	46 nodes to be scored	(358 eliminated genes)
```

```
## 
## 	 Level 7:	71 nodes to be scored	(478 eliminated genes)
```

```
## 
## 	 Level 6:	82 nodes to be scored	(612 eliminated genes)
```

```
## 
## 	 Level 5:	87 nodes to be scored	(929 eliminated genes)
```

```
## 
## 	 Level 4:	60 nodes to be scored	(991 eliminated genes)
```

```
## 
## 	 Level 3:	41 nodes to be scored	(1148 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1293 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1405 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 284 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	3 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 9:	10 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 8:	26 nodes to be scored	(105 eliminated genes)
```

```
## 
## 	 Level 7:	39 nodes to be scored	(433 eliminated genes)
```

```
## 
## 	 Level 6:	62 nodes to be scored	(591 eliminated genes)
```

```
## 
## 	 Level 5:	57 nodes to be scored	(978 eliminated genes)
```

```
## 
## 	 Level 4:	45 nodes to be scored	(1426 eliminated genes)
```

```
## 
## 	 Level 3:	27 nodes to be scored	(2057 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(2319 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2625 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0000027                       ribosomal large subunit assembly         2
## 2 GO:0000423                                              mitophagy         2
## 3 GO:0002931                                   response to ischemia         3
## 4 GO:0000281                                    mitotic cytokinesis        15
## 5 GO:0000122 negative regulation of transcription by RNA polymer...       140
## 6 GO:0000038           very long-chain fatty acid metabolic process         9
## 7 GO:0005044                            scavenger receptor activity        13
## 8 GO:0004675 transmembrane receptor protein serine/threonine kin...         3
## 9 GO:0003964                   RNA-directed DNA polymerase activity       122
##   Significant Expected Fisher               type
## 1           2     0.15 0.0053 Biological.Process
## 2           2     0.15 0.0053 Biological.Process
## 3           2     0.22 0.0151 Biological.Process
## 4           4     1.09 0.0195 Biological.Process
## 5          17    10.22 0.0206 Biological.Process
## 6           3     0.66 0.0230 Biological.Process
## 7           4     1.01 0.0140 Molecular.Function
## 8           2     0.23 0.0170 Molecular.Function
## 9          15     9.45 0.0470 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 490 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	7 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 11:	16 nodes to be scored	(147 eliminated genes)
```

```
## 
## 	 Level 10:	24 nodes to be scored	(225 eliminated genes)
```

```
## 
## 	 Level 9:	45 nodes to be scored	(261 eliminated genes)
```

```
## 
## 	 Level 8:	50 nodes to be scored	(367 eliminated genes)
```

```
## 
## 	 Level 7:	71 nodes to be scored	(459 eliminated genes)
```

```
## 
## 	 Level 6:	89 nodes to be scored	(665 eliminated genes)
```

```
## 
## 	 Level 5:	85 nodes to be scored	(952 eliminated genes)
```

```
## 
## 	 Level 4:	50 nodes to be scored	(1027 eliminated genes)
```

```
## 
## 	 Level 3:	37 nodes to be scored	(1167 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1275 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1392 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 270 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 9:	15 nodes to be scored	(12 eliminated genes)
```

```
## 
## 	 Level 8:	19 nodes to be scored	(156 eliminated genes)
```

```
## 
## 	 Level 7:	38 nodes to be scored	(481 eliminated genes)
```

```
## 
## 	 Level 6:	55 nodes to be scored	(583 eliminated genes)
```

```
## 
## 	 Level 5:	50 nodes to be scored	(909 eliminated genes)
```

```
## 
## 	 Level 4:	43 nodes to be scored	(1375 eliminated genes)
```

```
## 
## 	 Level 3:	28 nodes to be scored	(2053 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(2289 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2565 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0001822                                     kidney development        65
## 2 GO:0000165                                           MAPK cascade        35
## 3 GO:0001764                                       neuron migration         8
## 4 GO:0000184 nuclear-transcribed mRNA catabolic process, nonsens...        10
## 5 GO:0005524                                            ATP binding       263
## 6 GO:0001409 guanine nucleotide transmembrane transporter activi...        30
## 7 GO:0003964                   RNA-directed DNA polymerase activity       122
## 8 GO:0001222                      transcription corepressor binding         3
## 9 GO:0003777                             microtubule motor activity        16
##   Significant Expected   Fisher               type
## 1          18     5.44 0.000002 Biological.Process
## 2           8     2.93 0.006500 Biological.Process
## 3           3     0.67 0.023400 Biological.Process
## 4           3     0.84 0.044300 Biological.Process
## 5          38    20.37 0.000066 Molecular.Function
## 6           8     2.32 0.001500 Molecular.Function
## 7          17     9.45 0.011400 Molecular.Function
## 8           2     0.23 0.017000 Molecular.Function
## 9           4     1.24 0.030400 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 294 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(11 eliminated genes)
```

```
## 
## 	 Level 11:	9 nodes to be scored	(159 eliminated genes)
```

```
## 
## 	 Level 10:	15 nodes to be scored	(215 eliminated genes)
```

```
## 
## 	 Level 9:	23 nodes to be scored	(242 eliminated genes)
```

```
## 
## 	 Level 8:	24 nodes to be scored	(303 eliminated genes)
```

```
## 
## 	 Level 7:	30 nodes to be scored	(332 eliminated genes)
```

```
## 
## 	 Level 6:	44 nodes to be scored	(451 eliminated genes)
```

```
## 
## 	 Level 5:	59 nodes to be scored	(665 eliminated genes)
```

```
## 
## 	 Level 4:	45 nodes to be scored	(830 eliminated genes)
```

```
## 
## 	 Level 3:	26 nodes to be scored	(1039 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(1196 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1325 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 203 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 9:	9 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 8:	13 nodes to be scored	(152 eliminated genes)
```

```
## 
## 	 Level 7:	22 nodes to be scored	(462 eliminated genes)
```

```
## 
## 	 Level 6:	37 nodes to be scored	(576 eliminated genes)
```

```
## 
## 	 Level 5:	45 nodes to be scored	(836 eliminated genes)
```

```
## 
## 	 Level 4:	38 nodes to be scored	(1291 eliminated genes)
```

```
## 
## 	 Level 3:	22 nodes to be scored	(1996 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(2290 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2589 eliminated genes)
```

```
##         GO.ID                                               Term Annotated
## 1  GO:0002221     pattern recognition receptor signaling pathway        11
## 2  GO:0002674 negative regulation of acute inflammatory response         4
## 3  GO:0002040                             sprouting angiogenesis        12
## 4  GO:0001172                        RNA-templated transcription         1
## 5  GO:0000076               DNA replication checkpoint signaling         1
## 6  GO:0000492                            box C/D snoRNP assembly         1
## 7  GO:0005524                                        ATP binding       263
## 8  GO:0005201        extracellular matrix structural constituent        17
## 9  GO:0004017                          adenylate kinase activity         1
## 10 GO:0004505             phenylalanine 4-monooxygenase activity         1
##    Significant Expected   Fisher               type
## 1            5     0.47 0.000045 Biological.Process
## 2            3     0.17 0.000280 Biological.Process
## 3            3     0.51 0.016000 Biological.Process
## 4            1     0.04 0.042520 Biological.Process
## 5            1     0.04 0.042520 Biological.Process
## 6            1     0.04 0.042520 Biological.Process
## 7           20    11.27 0.007000 Molecular.Function
## 8            3     0.73 0.034000 Molecular.Function
## 9            1     0.04 0.043000 Molecular.Function
## 10           1     0.04 0.043000 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 407 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	9 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	13 nodes to be scored	(204 eliminated genes)
```

```
## 
## 	 Level 9:	29 nodes to be scored	(218 eliminated genes)
```

```
## 
## 	 Level 8:	39 nodes to be scored	(289 eliminated genes)
```

```
## 
## 	 Level 7:	53 nodes to be scored	(406 eliminated genes)
```

```
## 
## 	 Level 6:	78 nodes to be scored	(625 eliminated genes)
```

```
## 
## 	 Level 5:	76 nodes to be scored	(906 eliminated genes)
```

```
## 
## 	 Level 4:	53 nodes to be scored	(1025 eliminated genes)
```

```
## 
## 	 Level 3:	38 nodes to be scored	(1215 eliminated genes)
```

```
## 
## 	 Level 2:	13 nodes to be scored	(1310 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1387 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 274 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	13 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 8:	19 nodes to be scored	(150 eliminated genes)
```

```
## 
## 	 Level 7:	34 nodes to be scored	(479 eliminated genes)
```

```
## 
## 	 Level 6:	53 nodes to be scored	(594 eliminated genes)
```

```
## 
## 	 Level 5:	57 nodes to be scored	(938 eliminated genes)
```

```
## 
## 	 Level 4:	53 nodes to be scored	(1347 eliminated genes)
```

```
## 
## 	 Level 3:	27 nodes to be scored	(2008 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(2384 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2635 eliminated genes)
```

```
##         GO.ID                                           Term Annotated
## 1  GO:0003341                                cilium movement        20
## 2  GO:0002790                              peptide secretion         2
## 3  GO:0001822                             kidney development        65
## 4  GO:0002221 pattern recognition receptor signaling pathway        11
## 5  GO:0001558                      regulation of cell growth         3
## 6  GO:0015969     guanosine tetraphosphate metabolic process         9
## 7  GO:0001707                             mesoderm formation         4
## 8  GO:0005524                                    ATP binding       263
## 9  GO:0003964           RNA-directed DNA polymerase activity       122
## 10 GO:0000340              RNA 7-methylguanosine cap binding         4
## 11 GO:0005385    zinc ion transmembrane transporter activity         4
##    Significant Expected   Fisher               type
## 1            8     1.46 0.000037 Biological.Process
## 2            2     0.15 0.005300 Biological.Process
## 3           11     4.74 0.005800 Biological.Process
## 4            4     0.80 0.005900 Biological.Process
## 5            2     0.22 0.015100 Biological.Process
## 6            3     0.66 0.023000 Biological.Process
## 7            2     0.29 0.028700 Biological.Process
## 8           35    19.61 0.000330 Molecular.Function
## 9           17     9.10 0.007870 Molecular.Function
## 10           2     0.30 0.030030 Molecular.Function
## 11           2     0.30 0.030030 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 201 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(8 eliminated genes)
```

```
## 
## 	 Level 11:	7 nodes to be scored	(167 eliminated genes)
```

```
## 
## 	 Level 10:	10 nodes to be scored	(207 eliminated genes)
```

```
## 
## 	 Level 9:	15 nodes to be scored	(209 eliminated genes)
```

```
## 
## 	 Level 8:	14 nodes to be scored	(289 eliminated genes)
```

```
## 
## 	 Level 7:	16 nodes to be scored	(305 eliminated genes)
```

```
## 
## 	 Level 6:	25 nodes to be scored	(422 eliminated genes)
```

```
## 
## 	 Level 5:	39 nodes to be scored	(503 eliminated genes)
```

```
## 
## 	 Level 4:	32 nodes to be scored	(746 eliminated genes)
```

```
## 
## 	 Level 3:	21 nodes to be scored	(1019 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1116 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1298 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 171 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	10 nodes to be scored	(10 eliminated genes)
```

```
## 
## 	 Level 8:	12 nodes to be scored	(143 eliminated genes)
```

```
## 
## 	 Level 7:	20 nodes to be scored	(457 eliminated genes)
```

```
## 
## 	 Level 6:	30 nodes to be scored	(556 eliminated genes)
```

```
## 
## 	 Level 5:	33 nodes to be scored	(805 eliminated genes)
```

```
## 
## 	 Level 4:	29 nodes to be scored	(1091 eliminated genes)
```

```
## 
## 	 Level 3:	21 nodes to be scored	(1852 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(2184 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2541 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0003341                                        cilium movement        20
## 2  GO:0001676                long-chain fatty acid metabolic process         3
## 3  GO:0001736                       establishment of planar polarity         5
## 4  GO:0003943             N-acetylgalactosamine-4-sulfatase activity         8
## 5  GO:0004587               ornithine-oxo-acid transaminase activity         1
## 6  GO:0004760                  serine-pyruvate transaminase activity         1
## 7  GO:0004149 dihydrolipoyllysine-residue succinyltransferase act...         1
## 8  GO:0042802                              identical protein binding         1
## 9  GO:0005337          nucleoside transmembrane transporter activity         1
## 10 GO:0004054                               arginine kinase activity         1
## 11 GO:0004591 oxoglutarate dehydrogenase (succinyl-transferring) ...         1
## 12 GO:0000048                           peptidyltransferase activity         1
## 13 GO:0003980 UDP-glucose:glycoprotein glucosyltransferase activi...         1
## 14 GO:0001002 RNA polymerase III type 1 promoter sequence-specifi...         1
## 15 GO:0004842                 ubiquitin-protein transferase activity        35
## 16 GO:0004190                   aspartic-type endopeptidase activity         2
## 17 GO:0005272                                sodium channel activity         2
## 18 GO:0004714 transmembrane receptor protein tyrosine kinase acti...         2
##    Significant Expected  Fisher               type
## 1            4     0.40 0.00048 Biological.Process
## 2            2     0.06 0.00113 Biological.Process
## 3            2     0.10 0.00366 Biological.Process
## 4            2     0.17 0.01200 Molecular.Function
## 5            1     0.02 0.02200 Molecular.Function
## 6            1     0.02 0.02200 Molecular.Function
## 7            1     0.02 0.02200 Molecular.Function
## 8            1     0.02 0.02200 Molecular.Function
## 9            1     0.02 0.02200 Molecular.Function
## 10           1     0.02 0.02200 Molecular.Function
## 11           1     0.02 0.02200 Molecular.Function
## 12           1     0.02 0.02200 Molecular.Function
## 13           1     0.02 0.02200 Molecular.Function
## 14           1     0.02 0.02200 Molecular.Function
## 15           3     0.76 0.03800 Molecular.Function
## 16           1     0.04 0.04300 Molecular.Function
## 17           1     0.04 0.04300 Molecular.Function
## 18           1     0.04 0.04300 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 234 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	2 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 11:	9 nodes to be scored	(144 eliminated genes)
```

```
## 
## 	 Level 10:	12 nodes to be scored	(146 eliminated genes)
```

```
## 
## 	 Level 9:	19 nodes to be scored	(149 eliminated genes)
```

```
## 
## 	 Level 8:	18 nodes to be scored	(160 eliminated genes)
```

```
## 
## 	 Level 7:	26 nodes to be scored	(207 eliminated genes)
```

```
## 
## 	 Level 6:	34 nodes to be scored	(357 eliminated genes)
```

```
## 
## 	 Level 5:	47 nodes to be scored	(473 eliminated genes)
```

```
## 
## 	 Level 4:	32 nodes to be scored	(720 eliminated genes)
```

```
## 
## 	 Level 3:	18 nodes to be scored	(1000 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1204 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1312 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 159 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	5 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 8:	10 nodes to be scored	(11 eliminated genes)
```

```
## 
## 	 Level 7:	17 nodes to be scored	(341 eliminated genes)
```

```
## 
## 	 Level 6:	32 nodes to be scored	(432 eliminated genes)
```

```
## 
## 	 Level 5:	34 nodes to be scored	(697 eliminated genes)
```

```
## 
## 	 Level 4:	30 nodes to be scored	(1026 eliminated genes)
```

```
## 
## 	 Level 3:	19 nodes to be scored	(1806 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(2121 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2447 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0008218                                        bioluminescence        10
## 2  GO:0002025 norepinephrine-epinephrine-mediated vasodilation in...         1
## 3  GO:0001731         formation of translation preinitiation complex         1
## 4  GO:0001832                                      blastocyst growth         1
## 5  GO:0001516                     prostaglandin biosynthetic process         2
## 6  GO:0002121                         inter-male aggressive behavior         2
## 7  GO:0004089                         carbonate dehydratase activity         2
## 8  GO:0005302          L-tyrosine transmembrane transporter activity         9
## 9  GO:0004142      diacylglycerol cholinephosphotransferase activity         1
## 10 GO:0004067                                  asparaginase activity         1
## 11 GO:0003913                                DNA photolyase activity         1
## 12 GO:0002161                        aminoacyl-tRNA editing activity         1
## 13 GO:0004017                              adenylate kinase activity         1
## 14 GO:0004252                     serine-type endopeptidase activity        53
## 15 GO:0003978                       UDP-glucose 4-epimerase activity         2
## 16 GO:0004081 bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) a...         2
## 17 GO:0004720                      protein-lysine 6-oxidase activity         2
## 18 GO:0004176                       ATP-dependent peptidase activity         2
## 19 GO:0004566                            beta-glucuronidase activity         2
##    Significant Expected    Fisher               type
## 1            6     0.18 4.200e-09 Biological.Process
## 2            1     0.02 1.800e-02 Biological.Process
## 3            1     0.02 1.800e-02 Biological.Process
## 4            1     0.02 1.800e-02 Biological.Process
## 5            1     0.04 3.700e-02 Biological.Process
## 6            1     0.04 3.700e-02 Biological.Process
## 7            2     0.04 4.300e-04 Molecular.Function
## 8            2     0.19 1.406e-02 Molecular.Function
## 9            1     0.02 2.089e-02 Molecular.Function
## 10           1     0.02 2.089e-02 Molecular.Function
## 11           1     0.02 2.089e-02 Molecular.Function
## 12           1     0.02 2.089e-02 Molecular.Function
## 13           1     0.02 2.089e-02 Molecular.Function
## 14           4     1.11 2.348e-02 Molecular.Function
## 15           1     0.04 4.136e-02 Molecular.Function
## 16           1     0.04 4.136e-02 Molecular.Function
## 17           1     0.04 4.136e-02 Molecular.Function
## 18           1     0.04 4.136e-02 Molecular.Function
## 19           1     0.04 4.136e-02 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 564 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	7 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	17 nodes to be scored	(161 eliminated genes)
```

```
## 
## 	 Level 10:	25 nodes to be scored	(223 eliminated genes)
```

```
## 
## 	 Level 9:	51 nodes to be scored	(276 eliminated genes)
```

```
## 
## 	 Level 8:	63 nodes to be scored	(396 eliminated genes)
```

```
## 
## 	 Level 7:	83 nodes to be scored	(489 eliminated genes)
```

```
## 
## 	 Level 6:	96 nodes to be scored	(690 eliminated genes)
```

```
## 
## 	 Level 5:	100 nodes to be scored	(1010 eliminated genes)
```

```
## 
## 	 Level 4:	63 nodes to be scored	(1151 eliminated genes)
```

```
## 
## 	 Level 3:	42 nodes to be scored	(1285 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1339 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1406 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 349 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	18 nodes to be scored	(12 eliminated genes)
```

```
## 
## 	 Level 8:	24 nodes to be scored	(153 eliminated genes)
```

```
## 
## 	 Level 7:	48 nodes to be scored	(488 eliminated genes)
```

```
## 
## 	 Level 6:	77 nodes to be scored	(632 eliminated genes)
```

```
## 
## 	 Level 5:	67 nodes to be scored	(1020 eliminated genes)
```

```
## 
## 	 Level 4:	62 nodes to be scored	(1506 eliminated genes)
```

```
## 
## 	 Level 3:	33 nodes to be scored	(2140 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(2448 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2683 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0001822                                     kidney development        65
## 2  GO:0003341                                        cilium movement        20
## 3  GO:0002221         pattern recognition receptor signaling pathway        11
## 4  GO:0000082                  G1/S transition of mitotic cell cycle       104
## 5  GO:0005524                                            ATP binding       263
## 6  GO:0000030                           mannosyltransferase activity        12
## 7  GO:0003964                   RNA-directed DNA polymerase activity       122
## 8  GO:0004622                             lysophospholipase activity         4
## 9  GO:0000340                      RNA 7-methylguanosine cap binding         4
## 10 GO:0004571 mannosyl-oligosaccharide 1,2-alpha-mannosidase acti...         2
## 11 GO:0004342             glucosamine-6-phosphate deaminase activity         2
## 12 GO:0001965                        G-protein alpha-subunit binding        16
## 13 GO:0005085             guanyl-nucleotide exchange factor activity        12
##    Significant Expected    Fisher               type
## 1           19     8.84 0.0005700 Biological.Process
## 2            9     2.72 0.0005800 Biological.Process
## 3            5     1.50 0.0102400 Biological.Process
## 4           22    14.15 0.0182400 Biological.Process
## 5           66    39.13 0.0000032 Molecular.Function
## 6            7     1.79 0.0005900 Molecular.Function
## 7           29    18.15 0.0052900 Molecular.Function
## 8            3     0.60 0.0116400 Molecular.Function
## 9            3     0.60 0.0116400 Molecular.Function
## 10           2     0.30 0.0220900 Molecular.Function
## 11           2     0.30 0.0220900 Molecular.Function
## 12           6     2.38 0.0223300 Molecular.Function
## 13           5     1.79 0.0228800 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 2 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 324 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 11:	10 nodes to be scored	(143 eliminated genes)
```

```
## 
## 	 Level 10:	12 nodes to be scored	(212 eliminated genes)
```

```
## 
## 	 Level 9:	22 nodes to be scored	(239 eliminated genes)
```

```
## 
## 	 Level 8:	30 nodes to be scored	(322 eliminated genes)
```

```
## 
## 	 Level 7:	39 nodes to be scored	(380 eliminated genes)
```

```
## 
## 	 Level 6:	52 nodes to be scored	(574 eliminated genes)
```

```
## 
## 	 Level 5:	65 nodes to be scored	(831 eliminated genes)
```

```
## 
## 	 Level 4:	45 nodes to be scored	(944 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(1139 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(1307 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1380 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 255 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	11 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 8:	20 nodes to be scored	(101 eliminated genes)
```

```
## 
## 	 Level 7:	37 nodes to be scored	(414 eliminated genes)
```

```
## 
## 	 Level 6:	63 nodes to be scored	(600 eliminated genes)
```

```
## 
## 	 Level 5:	46 nodes to be scored	(952 eliminated genes)
```

```
## 
## 	 Level 4:	41 nodes to be scored	(1424 eliminated genes)
```

```
## 
## 	 Level 3:	24 nodes to be scored	(2014 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(2284 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2601 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0000226                  microtubule cytoskeleton organization        43
## 2 GO:0006813                                potassium ion transport         1
## 3 GO:0000052                           citrulline metabolic process         1
## 4 GO:0000349 generation of catalytic spliceosome for first trans...         1
## 5 GO:0000390                       spliceosomal complex disassembly         1
## 6 GO:0003985                acetyl-CoA C-acetyltransferase activity         2
## 7 GO:0005272                                sodium channel activity         2
## 8 GO:0005524                                            ATP binding       263
##   Significant Expected Fisher               type
## 1           6     1.80 0.0280 Biological.Process
## 2           1     0.04 0.0420 Biological.Process
## 3           1     0.04 0.0420 Biological.Process
## 4           1     0.04 0.0420 Biological.Process
## 5           1     0.04 0.0420 Biological.Process
## 6           2     0.11 0.0033 Molecular.Function
## 7           2     0.11 0.0033 Molecular.Function
## 8          26    15.06 0.0033 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 168 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	4 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(203 eliminated genes)
```

```
## 
## 	 Level 9:	9 nodes to be scored	(205 eliminated genes)
```

```
## 
## 	 Level 8:	10 nodes to be scored	(248 eliminated genes)
```

```
## 
## 	 Level 7:	10 nodes to be scored	(271 eliminated genes)
```

```
## 
## 	 Level 6:	22 nodes to be scored	(319 eliminated genes)
```

```
## 
## 	 Level 5:	34 nodes to be scored	(371 eliminated genes)
```

```
## 
## 	 Level 4:	33 nodes to be scored	(504 eliminated genes)
```

```
## 
## 	 Level 3:	25 nodes to be scored	(778 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(943 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1146 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 142 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	10 nodes to be scored	(102 eliminated genes)
```

```
## 
## 	 Level 7:	21 nodes to be scored	(391 eliminated genes)
```

```
## 
## 	 Level 6:	28 nodes to be scored	(550 eliminated genes)
```

```
## 
## 	 Level 5:	30 nodes to be scored	(840 eliminated genes)
```

```
## 
## 	 Level 4:	22 nodes to be scored	(1084 eliminated genes)
```

```
## 
## 	 Level 3:	15 nodes to be scored	(1782 eliminated genes)
```

```
## 
## 	 Level 2:	7 nodes to be scored	(2054 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2402 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0001558                              regulation of cell growth         3
## 2  GO:0003844             1,4-alpha-glucan branching enzyme activity         1
## 3  GO:0004325                                ferrochelatase activity         1
## 4  GO:0004066 asparagine synthase (glutamine-hydrolyzing) activit...         1
## 5  GO:0004618                       phosphoglycerate kinase activity         1
## 6  GO:0004777 succinate-semialdehyde dehydrogenase (NAD+) activit...         1
## 7  GO:0004095              carnitine O-palmitoyltransferase activity         1
## 8  GO:0005391 P-type sodium:potassium-exchanging transporter acti...         2
## 9  GO:0003730                                    mRNA 3'-UTR binding         2
## 10 GO:0003987                            acetate-CoA ligase activity         2
## 11 GO:0004029                 aldehyde dehydrogenase (NAD+) activity         3
## 12 GO:0004031                              aldehyde oxidase activity         3
##    Significant Expected Fisher               type
## 1            1     0.03  0.027 Biological.Process
## 2            1     0.02  0.015 Molecular.Function
## 3            1     0.02  0.015 Molecular.Function
## 4            1     0.02  0.015 Molecular.Function
## 5            1     0.02  0.015 Molecular.Function
## 6            1     0.02  0.015 Molecular.Function
## 7            1     0.02  0.015 Molecular.Function
## 8            1     0.03  0.030 Molecular.Function
## 9            1     0.03  0.030 Molecular.Function
## 10           1     0.03  0.030 Molecular.Function
## 11           1     0.05  0.045 Molecular.Function
## 12           1     0.05  0.045 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 656 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	7 nodes to be scored	(5 eliminated genes)
```

```
## 
## 	 Level 12:	11 nodes to be scored	(20 eliminated genes)
```

```
## 
## 	 Level 11:	23 nodes to be scored	(172 eliminated genes)
```

```
## 
## 	 Level 10:	34 nodes to be scored	(227 eliminated genes)
```

```
## 
## 	 Level 9:	63 nodes to be scored	(275 eliminated genes)
```

```
## 
## 	 Level 8:	75 nodes to be scored	(390 eliminated genes)
```

```
## 
## 	 Level 7:	92 nodes to be scored	(532 eliminated genes)
```

```
## 
## 	 Level 6:	112 nodes to be scored	(707 eliminated genes)
```

```
## 
## 	 Level 5:	108 nodes to be scored	(1018 eliminated genes)
```

```
## 
## 	 Level 4:	65 nodes to be scored	(1098 eliminated genes)
```

```
## 
## 	 Level 3:	46 nodes to be scored	(1240 eliminated genes)
```

```
## 
## 	 Level 2:	13 nodes to be scored	(1344 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1406 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 419 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	9 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 9:	21 nodes to be scored	(9 eliminated genes)
```

```
## 
## 	 Level 8:	40 nodes to be scored	(160 eliminated genes)
```

```
## 
## 	 Level 7:	64 nodes to be scored	(502 eliminated genes)
```

```
## 
## 	 Level 6:	94 nodes to be scored	(661 eliminated genes)
```

```
## 
## 	 Level 5:	68 nodes to be scored	(1036 eliminated genes)
```

```
## 
## 	 Level 4:	67 nodes to be scored	(1518 eliminated genes)
```

```
## 
## 	 Level 3:	37 nodes to be scored	(2150 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(2458 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2682 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0003341                                        cilium movement        20
## 2  GO:0000184 nuclear-transcribed mRNA catabolic process, nonsens...        10
## 3  GO:0002064                            epithelial cell development         4
## 4  GO:0000045                                 autophagosome assembly         7
## 5  GO:0007224                           smoothened signaling pathway         2
## 6  GO:0002790                                      peptide secretion         2
## 7  GO:0001933         negative regulation of protein phosphorylation         5
## 8  GO:0000038           very long-chain fatty acid metabolic process         9
## 9  GO:0005388                    P-type calcium transporter activity         4
## 10 GO:0003964                   RNA-directed DNA polymerase activity       122
## 11 GO:0003676                                   nucleic acid binding       497
## 12 GO:0005044                            scavenger receptor activity        13
## 13 GO:0005524                                            ATP binding       263
## 14 GO:0004345             glucose-6-phosphate dehydrogenase activity         2
## 15 GO:0004100                               chitin synthase activity         2
## 16 GO:0003730                                    mRNA 3'-UTR binding         2
## 17 GO:0004573 Glc3Man9GlcNAc2 oligosaccharide glucosidase activit...         2
## 18 GO:0003756                   protein disulfide isomerase activity         5
## 19 GO:0003723                                            RNA binding       128
##    Significant Expected Fisher               type
## 1            9     3.23 0.0060 Biological.Process
## 2            5     1.62 0.0130 Biological.Process
## 3            3     0.65 0.0150 Biological.Process
## 4            4     1.13 0.0160 Biological.Process
## 5            2     0.32 0.0260 Biological.Process
## 6            2     0.32 0.0260 Biological.Process
## 7            3     0.81 0.0320 Biological.Process
## 8            4     1.45 0.0430 Biological.Process
## 9            4     0.73 0.0011 Molecular.Function
## 10          35    22.41 0.0029 Molecular.Function
## 11         108    91.31 0.0033 Molecular.Function
## 12           6     2.39 0.0199 Molecular.Function
## 13          61    48.32 0.0228 Molecular.Function
## 14           2     0.37 0.0337 Molecular.Function
## 15           2     0.37 0.0337 Molecular.Function
## 16           2     0.37 0.0337 Molecular.Function
## 17           2     0.37 0.0337 Molecular.Function
## 18           3     0.92 0.0460 Molecular.Function
## 19          29    23.52 0.0465 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 2 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 412 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	8 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	13 nodes to be scored	(144 eliminated genes)
```

```
## 
## 	 Level 10:	19 nodes to be scored	(222 eliminated genes)
```

```
## 
## 	 Level 9:	33 nodes to be scored	(259 eliminated genes)
```

```
## 
## 	 Level 8:	36 nodes to be scored	(354 eliminated genes)
```

```
## 
## 	 Level 7:	48 nodes to be scored	(427 eliminated genes)
```

```
## 
## 	 Level 6:	72 nodes to be scored	(591 eliminated genes)
```

```
## 
## 	 Level 5:	76 nodes to be scored	(920 eliminated genes)
```

```
## 
## 	 Level 4:	55 nodes to be scored	(1051 eliminated genes)
```

```
## 
## 	 Level 3:	38 nodes to be scored	(1197 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1332 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1399 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 279 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 9:	13 nodes to be scored	(3 eliminated genes)
```

```
## 
## 	 Level 8:	22 nodes to be scored	(146 eliminated genes)
```

```
## 
## 	 Level 7:	36 nodes to be scored	(467 eliminated genes)
```

```
## 
## 	 Level 6:	61 nodes to be scored	(607 eliminated genes)
```

```
## 
## 	 Level 5:	54 nodes to be scored	(942 eliminated genes)
```

```
## 
## 	 Level 4:	48 nodes to be scored	(1368 eliminated genes)
```

```
## 
## 	 Level 3:	27 nodes to be scored	(2003 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(2320 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2606 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0001508                                       action potential         4
## 2 GO:0005524                                            ATP binding       263
## 3 GO:0001409 guanine nucleotide transmembrane transporter activi...        30
## 4 GO:0003964                   RNA-directed DNA polymerase activity       122
## 5 GO:0004888              transmembrane signaling receptor activity       224
## 6 GO:0004972                       NMDA glutamate receptor activity         3
## 7 GO:0003676                                   nucleic acid binding       497
## 8 GO:0001965                        G-protein alpha-subunit binding        16
##   Significant Expected   Fisher               type
## 1           2     0.28 0.026000 Biological.Process
## 2          41    21.22 0.000014 Molecular.Function
## 3           9     2.42 0.000390 Molecular.Function
## 4          19     9.84 0.003440 Molecular.Function
## 5          18    18.07 0.015910 Molecular.Function
## 6           2     0.24 0.018420 Molecular.Function
## 7          42    40.10 0.019940 Molecular.Function
## 8           4     1.29 0.034670 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 322 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	8 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	14 nodes to be scored	(142 eliminated genes)
```

```
## 
## 	 Level 10:	16 nodes to be scored	(216 eliminated genes)
```

```
## 
## 	 Level 9:	22 nodes to be scored	(235 eliminated genes)
```

```
## 
## 	 Level 8:	26 nodes to be scored	(279 eliminated genes)
```

```
## 
## 	 Level 7:	38 nodes to be scored	(359 eliminated genes)
```

```
## 
## 	 Level 6:	51 nodes to be scored	(462 eliminated genes)
```

```
## 
## 	 Level 5:	62 nodes to be scored	(694 eliminated genes)
```

```
## 
## 	 Level 4:	43 nodes to be scored	(830 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(1098 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1293 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1351 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 161 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	6 nodes to be scored	(9 eliminated genes)
```

```
## 
## 	 Level 8:	8 nodes to be scored	(142 eliminated genes)
```

```
## 
## 	 Level 7:	20 nodes to be scored	(442 eliminated genes)
```

```
## 
## 	 Level 6:	33 nodes to be scored	(472 eliminated genes)
```

```
## 
## 	 Level 5:	34 nodes to be scored	(782 eliminated genes)
```

```
## 
## 	 Level 4:	30 nodes to be scored	(1211 eliminated genes)
```

```
## 
## 	 Level 3:	18 nodes to be scored	(1913 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(2169 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2455 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0003341                                        cilium movement        20
## 2  GO:0015969             guanosine tetraphosphate metabolic process         9
## 3  GO:0000972 transcription-dependent tethering of RNA polymerase...         1
## 4  GO:0001731         formation of translation preinitiation complex         1
## 5  GO:0007175 negative regulation of epidermal growth factor-acti...         1
## 6  GO:0000390                       spliceosomal complex disassembly         1
## 7  GO:0006884                                cell volume homeostasis         1
## 8  GO:0006513                             protein monoubiquitination         1
## 9  GO:0002291 T cell activation via T cell receptor contact with ...        10
## 10 GO:0000082                  G1/S transition of mitotic cell cycle       104
## 11 GO:0001409 guanine nucleotide transmembrane transporter activi...        30
## 12 GO:0004315     3-oxoacyl-[acyl-carrier-protein] synthase activity         2
## 13 GO:0003964                   RNA-directed DNA polymerase activity       122
## 14 GO:0005524                                            ATP binding       263
## 15 GO:0003676                                   nucleic acid binding       497
## 16 GO:0004142      diacylglycerol cholinephosphotransferase activity         1
## 17 GO:0005080                               protein kinase C binding         1
## 18 GO:0005338    nucleotide-sugar transmembrane transporter activity         1
## 19 GO:0004591 oxoglutarate dehydrogenase (succinyl-transferring) ...         1
## 20 GO:0003863 3-methyl-2-oxobutanoate dehydrogenase (2-methylprop...         1
## 21 GO:0004022                  alcohol dehydrogenase (NAD+) activity         1
## 22 GO:0004013                        adenosylhomocysteinase activity         1
## 23 GO:0001758                         retinal dehydrogenase activity         1
##    Significant Expected Fisher               type
## 1            3     0.62 0.0220 Biological.Process
## 2            2     0.28 0.0300 Biological.Process
## 3            1     0.03 0.0310 Biological.Process
## 4            1     0.03 0.0310 Biological.Process
## 5            1     0.03 0.0310 Biological.Process
## 6            1     0.03 0.0310 Biological.Process
## 7            1     0.03 0.0310 Biological.Process
## 8            1     0.03 0.0310 Biological.Process
## 9            2     0.31 0.0360 Biological.Process
## 10           7     3.24 0.0380 Biological.Process
## 11           6     1.25 0.0012 Molecular.Function
## 12           2     0.08 0.0017 Molecular.Function
## 13          12     5.10 0.0042 Molecular.Function
## 14          18    10.99 0.0227 Molecular.Function
## 15          21    20.77 0.0368 Molecular.Function
## 16           1     0.04 0.0418 Molecular.Function
## 17           1     0.04 0.0418 Molecular.Function
## 18           1     0.04 0.0418 Molecular.Function
## 19           1     0.04 0.0418 Molecular.Function
## 20           1     0.04 0.0418 Molecular.Function
## 21           1     0.04 0.0418 Molecular.Function
## 22           1     0.04 0.0418 Molecular.Function
## 23           1     0.04 0.0418 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 271 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	9 nodes to be scored	(152 eliminated genes)
```

```
## 
## 	 Level 10:	11 nodes to be scored	(222 eliminated genes)
```

```
## 
## 	 Level 9:	19 nodes to be scored	(239 eliminated genes)
```

```
## 
## 	 Level 8:	21 nodes to be scored	(273 eliminated genes)
```

```
## 
## 	 Level 7:	29 nodes to be scored	(295 eliminated genes)
```

```
## 
## 	 Level 6:	43 nodes to be scored	(455 eliminated genes)
```

```
## 
## 	 Level 5:	51 nodes to be scored	(729 eliminated genes)
```

```
## 
## 	 Level 4:	39 nodes to be scored	(828 eliminated genes)
```

```
## 
## 	 Level 3:	30 nodes to be scored	(1036 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1217 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1371 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 102 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 9:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 7:	10 nodes to be scored	(263 eliminated genes)
```

```
## 
## 	 Level 6:	16 nodes to be scored	(334 eliminated genes)
```

```
## 
## 	 Level 5:	22 nodes to be scored	(557 eliminated genes)
```

```
## 
## 	 Level 4:	21 nodes to be scored	(816 eliminated genes)
```

```
## 
## 	 Level 3:	20 nodes to be scored	(1641 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(1929 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2508 eliminated genes)
```

```
##         GO.ID                                               Term Annotated
## 1  GO:0001822                                 kidney development        65
## 2  GO:0001818         negative regulation of cytokine production        18
## 3  GO:0000335 negative regulation of transposition, DNA-mediated         1
## 4  GO:0001913                       T cell mediated cytotoxicity         1
## 5  GO:0001696                             gastric acid secretion        10
## 6  GO:0005524                                        ATP binding       263
## 7  GO:0004017                          adenylate kinase activity         1
## 8  GO:0003682                                  chromatin binding        13
## 9  GO:0004100                           chitin synthase activity         2
## 10 GO:0004660               protein farnesyltransferase activity         2
## 11 GO:0001965                    G-protein alpha-subunit binding        16
##    Significant Expected  Fisher               type
## 1            7     1.93 0.00240 Biological.Process
## 2            3     0.54 0.01470 Biological.Process
## 3            1     0.03 0.02980 Biological.Process
## 4            1     0.03 0.02980 Biological.Process
## 5            2     0.30 0.03350 Biological.Process
## 6           16     5.87 0.00013 Molecular.Function
## 7            1     0.02 0.02233 Molecular.Function
## 8            2     0.29 0.03268 Molecular.Function
## 9            1     0.04 0.04418 Molecular.Function
## 10           1     0.04 0.04418 Molecular.Function
## 11           2     0.36 0.04818 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 269 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	4 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 11:	8 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 10:	9 nodes to be scored	(79 eliminated genes)
```

```
## 
## 	 Level 9:	17 nodes to be scored	(96 eliminated genes)
```

```
## 
## 	 Level 8:	22 nodes to be scored	(146 eliminated genes)
```

```
## 
## 	 Level 7:	30 nodes to be scored	(181 eliminated genes)
```

```
## 
## 	 Level 6:	43 nodes to be scored	(321 eliminated genes)
```

```
## 
## 	 Level 5:	59 nodes to be scored	(637 eliminated genes)
```

```
## 
## 	 Level 4:	42 nodes to be scored	(812 eliminated genes)
```

```
## 
## 	 Level 3:	23 nodes to be scored	(1054 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1237 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1291 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 150 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	9 nodes to be scored	(7 eliminated genes)
```

```
## 
## 	 Level 7:	18 nodes to be scored	(445 eliminated genes)
```

```
## 
## 	 Level 6:	32 nodes to be scored	(560 eliminated genes)
```

```
## 
## 	 Level 5:	31 nodes to be scored	(785 eliminated genes)
```

```
## 
## 	 Level 4:	26 nodes to be scored	(1169 eliminated genes)
```

```
## 
## 	 Level 3:	17 nodes to be scored	(1813 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(2105 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2425 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0015969             guanosine tetraphosphate metabolic process         9
## 2  GO:0001731         formation of translation preinitiation complex         1
## 3  GO:0000349 generation of catalytic spliceosome for first trans...         1
## 4  GO:0016311                                      dephosphorylation         1
## 5  GO:0006091         generation of precursor metabolites and energy        12
## 6  GO:0000079 regulation of cyclin-dependent protein serine/threo...         2
## 7  GO:0001569       branching involved in blood vessel morphogenesis         2
## 8  GO:0002790                                      peptide secretion         2
## 9  GO:0005302          L-tyrosine transmembrane transporter activity         9
## 10 GO:0003824                                     catalytic activity      1042
## 11 GO:0004140                          dephospho-CoA kinase activity         1
## 12 GO:0000822                      inositol hexakisphosphate binding         1
## 13 GO:0004334                           fumarylacetoacetase activity         1
## 14 GO:0004095              carnitine O-palmitoyltransferase activity         1
## 15 GO:0001054                              RNA polymerase I activity         1
##    Significant Expected Fisher               type
## 1            2     0.19 0.0140 Biological.Process
## 2            1     0.02 0.0210 Biological.Process
## 3            1     0.02 0.0210 Biological.Process
## 4            1     0.02 0.0210 Biological.Process
## 5            2     0.26 0.0250 Biological.Process
## 6            1     0.04 0.0420 Biological.Process
## 7            1     0.04 0.0420 Biological.Process
## 8            1     0.04 0.0420 Biological.Process
## 9            3     0.24 0.0014 Molecular.Function
## 10          30    28.15 0.0122 Molecular.Function
## 11           1     0.03 0.0270 Molecular.Function
## 12           1     0.03 0.0270 Molecular.Function
## 13           1     0.03 0.0270 Molecular.Function
## 14           1     0.03 0.0270 Molecular.Function
## 15           1     0.03 0.0270 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 356 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	8 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 11:	11 nodes to be scored	(144 eliminated genes)
```

```
## 
## 	 Level 10:	17 nodes to be scored	(219 eliminated genes)
```

```
## 
## 	 Level 9:	31 nodes to be scored	(236 eliminated genes)
```

```
## 
## 	 Level 8:	34 nodes to be scored	(330 eliminated genes)
```

```
## 
## 	 Level 7:	46 nodes to be scored	(398 eliminated genes)
```

```
## 
## 	 Level 6:	58 nodes to be scored	(519 eliminated genes)
```

```
## 
## 	 Level 5:	61 nodes to be scored	(761 eliminated genes)
```

```
## 
## 	 Level 4:	45 nodes to be scored	(882 eliminated genes)
```

```
## 
## 	 Level 3:	30 nodes to be scored	(1085 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1273 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1372 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 212 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	7 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	10 nodes to be scored	(100 eliminated genes)
```

```
## 
## 	 Level 7:	27 nodes to be scored	(429 eliminated genes)
```

```
## 
## 	 Level 6:	48 nodes to be scored	(532 eliminated genes)
```

```
## 
## 	 Level 5:	49 nodes to be scored	(884 eliminated genes)
```

```
## 
## 	 Level 4:	42 nodes to be scored	(1288 eliminated genes)
```

```
## 
## 	 Level 3:	19 nodes to be scored	(1941 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(2226 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2562 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0002218                   activation of innate immune response        15
## 2  GO:0006397                                        mRNA processing        64
## 3  GO:0006813                                potassium ion transport         1
## 4  GO:0006601                          creatine biosynthetic process         1
## 5  GO:0000349 generation of catalytic spliceosome for first trans...         1
## 6  GO:0001731         formation of translation preinitiation complex         1
## 7  GO:0002265       astrocyte activation involved in immune response         1
## 8  GO:0001113 transcription open complex formation at RNA polymer...         1
## 9  GO:0002230 positive regulation of defense response to virus by...         1
## 10 GO:0009071             serine family amino acid catabolic process         1
## 11 GO:0016311                                      dephosphorylation         1
## 12 GO:0003730                                    mRNA 3'-UTR binding         2
## 13 GO:0003676                                   nucleic acid binding       497
## 14 GO:0000016                                       lactase activity         4
## 15 GO:0004222                          metalloendopeptidase activity        15
## 16 GO:0004458          D-lactate dehydrogenase (cytochrome) activity         1
## 17 GO:0004334                           fumarylacetoacetase activity         1
## 18 GO:0002161                        aminoacyl-tRNA editing activity         1
## 19 GO:0015101      organic cation transmembrane transporter activity         1
## 20 GO:0004516          nicotinate phosphoribosyltransferase activity         1
## 21 GO:0008137               NADH dehydrogenase (ubiquinone) activity         1
## 22 GO:0004618                       phosphoglycerate kinase activity         1
## 23 GO:0004642    phosphoribosylformylglycinamidine synthase activity         1
## 24 GO:0004325                                ferrochelatase activity         1
## 25 GO:0008810                                     cellulase activity         1
## 26 GO:0004777 succinate-semialdehyde dehydrogenase (NAD+) activit...         1
## 27 GO:0003997                              acyl-CoA oxidase activity         1
## 28 GO:0004637            phosphoribosylamine-glycine ligase activity         1
## 29 GO:0005524                                            ATP binding       263
##    Significant Expected Fisher               type
## 1            4     0.52 0.0013 Biological.Process
## 2            4     2.22 0.0341 Biological.Process
## 3            1     0.03 0.0347 Biological.Process
## 4            1     0.03 0.0347 Biological.Process
## 5            1     0.03 0.0347 Biological.Process
## 6            1     0.03 0.0347 Biological.Process
## 7            1     0.03 0.0347 Biological.Process
## 8            1     0.03 0.0347 Biological.Process
## 9            1     0.03 0.0347 Biological.Process
## 10           1     0.03 0.0347 Biological.Process
## 11           1     0.03 0.0347 Biological.Process
## 12           2     0.08 0.0017 Molecular.Function
## 13          28    20.77 0.0097 Molecular.Function
## 14           2     0.17 0.0098 Molecular.Function
## 15           3     0.63 0.0224 Molecular.Function
## 16           1     0.04 0.0418 Molecular.Function
## 17           1     0.04 0.0418 Molecular.Function
## 18           1     0.04 0.0418 Molecular.Function
## 19           1     0.04 0.0418 Molecular.Function
## 20           1     0.04 0.0418 Molecular.Function
## 21           1     0.04 0.0418 Molecular.Function
## 22           1     0.04 0.0418 Molecular.Function
## 23           1     0.04 0.0418 Molecular.Function
## 24           1     0.04 0.0418 Molecular.Function
## 25           1     0.04 0.0418 Molecular.Function
## 26           1     0.04 0.0418 Molecular.Function
## 27           1     0.04 0.0418 Molecular.Function
## 28           1     0.04 0.0418 Molecular.Function
## 29          17    10.99 0.0431 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 519 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	8 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 12:	8 nodes to be scored	(15 eliminated genes)
```

```
## 
## 	 Level 11:	18 nodes to be scored	(173 eliminated genes)
```

```
## 
## 	 Level 10:	26 nodes to be scored	(217 eliminated genes)
```

```
## 
## 	 Level 9:	49 nodes to be scored	(253 eliminated genes)
```

```
## 
## 	 Level 8:	51 nodes to be scored	(353 eliminated genes)
```

```
## 
## 	 Level 7:	69 nodes to be scored	(494 eliminated genes)
```

```
## 
## 	 Level 6:	84 nodes to be scored	(630 eliminated genes)
```

```
## 
## 	 Level 5:	91 nodes to be scored	(908 eliminated genes)
```

```
## 
## 	 Level 4:	58 nodes to be scored	(1001 eliminated genes)
```

```
## 
## 	 Level 3:	42 nodes to be scored	(1202 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1316 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1394 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 284 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 10:	5 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 9:	14 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 8:	19 nodes to be scored	(151 eliminated genes)
```

```
## 
## 	 Level 7:	36 nodes to be scored	(480 eliminated genes)
```

```
## 
## 	 Level 6:	63 nodes to be scored	(579 eliminated genes)
```

```
## 
## 	 Level 5:	56 nodes to be scored	(929 eliminated genes)
```

```
## 
## 	 Level 4:	48 nodes to be scored	(1361 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(2104 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(2386 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2632 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0001732 formation of cytoplasmic translation initiation com...         6
## 2 GO:0000054                  ribosomal subunit export from nucleus         3
## 3 GO:0003676                                   nucleic acid binding       497
## 4 GO:0003727                            single-stranded RNA binding         2
## 5 GO:0003723                                            RNA binding       128
## 6 GO:0003964                   RNA-directed DNA polymerase activity       122
## 7 GO:0005198                           structural molecule activity        54
##   Significant Expected    Fisher               type
## 1           4     0.45 0.0004200 Biological.Process
## 2           2     0.23 0.0162500 Biological.Process
## 3          59    39.03 0.0000034 Molecular.Function
## 4           2     0.16 0.0061000 Molecular.Function
## 5          20    10.05 0.0074000 Molecular.Function
## 6          17     9.58 0.0130000 Molecular.Function
## 7           9     4.24 0.0343000 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 167 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	4 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 9:	8 nodes to be scored	(148 eliminated genes)
```

```
## 
## 	 Level 8:	8 nodes to be scored	(201 eliminated genes)
```

```
## 
## 	 Level 7:	15 nodes to be scored	(223 eliminated genes)
```

```
## 
## 	 Level 6:	29 nodes to be scored	(272 eliminated genes)
```

```
## 
## 	 Level 5:	40 nodes to be scored	(485 eliminated genes)
```

```
## 
## 	 Level 4:	28 nodes to be scored	(577 eliminated genes)
```

```
## 
## 	 Level 3:	17 nodes to be scored	(878 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(1078 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1245 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 75 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 9:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 7:	6 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 6:	10 nodes to be scored	(10 eliminated genes)
```

```
## 
## 	 Level 5:	16 nodes to be scored	(46 eliminated genes)
```

```
## 
## 	 Level 4:	18 nodes to be scored	(225 eliminated genes)
```

```
## 
## 	 Level 3:	15 nodes to be scored	(1356 eliminated genes)
```

```
## 
## 	 Level 2:	4 nodes to be scored	(1846 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2434 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0006884                                cell volume homeostasis         1
## 2 GO:0001508                                       action potential         4
## 3 GO:0001510                                        RNA methylation         4
## 4 GO:0004095              carnitine O-palmitoyltransferase activity         1
## 5 GO:0004494                      methylmalonyl-CoA mutase activity         1
## 6 GO:0001055                             RNA polymerase II activity         1
## 7 GO:0004435          phosphatidylinositol phospholipase C activity         1
## 8 GO:0004591 oxoglutarate dehydrogenase (succinyl-transferring) ...         1
## 9 GO:0016491                                oxidoreductase activity       115
##   Significant Expected Fisher               type
## 1           1     0.01 0.0085 Biological.Process
## 2           1     0.03 0.0336 Biological.Process
## 3           1     0.03 0.0336 Biological.Process
## 4           1     0.01 0.0090 Molecular.Function
## 5           1     0.01 0.0090 Molecular.Function
## 6           1     0.01 0.0090 Molecular.Function
## 7           1     0.01 0.0090 Molecular.Function
## 8           1     0.01 0.0090 Molecular.Function
## 9           5     1.04 0.0220 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 222 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	4 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	5 nodes to be scored	(147 eliminated genes)
```

```
## 
## 	 Level 9:	10 nodes to be scored	(149 eliminated genes)
```

```
## 
## 	 Level 8:	18 nodes to be scored	(180 eliminated genes)
```

```
## 
## 	 Level 7:	24 nodes to be scored	(244 eliminated genes)
```

```
## 
## 	 Level 6:	41 nodes to be scored	(396 eliminated genes)
```

```
## 
## 	 Level 5:	50 nodes to be scored	(560 eliminated genes)
```

```
## 
## 	 Level 4:	33 nodes to be scored	(768 eliminated genes)
```

```
## 
## 	 Level 3:	23 nodes to be scored	(1004 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1238 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1370 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 193 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	1 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 9:	8 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 8:	12 nodes to be scored	(153 eliminated genes)
```

```
## 
## 	 Level 7:	23 nodes to be scored	(465 eliminated genes)
```

```
## 
## 	 Level 6:	37 nodes to be scored	(569 eliminated genes)
```

```
## 
## 	 Level 5:	40 nodes to be scored	(803 eliminated genes)
```

```
## 
## 	 Level 4:	36 nodes to be scored	(1160 eliminated genes)
```

```
## 
## 	 Level 3:	22 nodes to be scored	(2007 eliminated genes)
```

```
## 
## 	 Level 2:	7 nodes to be scored	(2281 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2579 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0002221         pattern recognition receptor signaling pathway        11
## 2  GO:0001666                                    response to hypoxia        14
## 3  GO:0006556              S-adenosylmethionine biosynthetic process         1
## 4  GO:0001937 negative regulation of endothelial cell proliferati...         1
## 5  GO:0005198                           structural molecule activity        54
## 6  GO:0003756                   protein disulfide isomerase activity         5
## 7  GO:0004332                fructose-bisphosphate aldolase activity         1
## 8  GO:0001594                          trace-amine receptor activity         1
## 9  GO:0004305                           ethanolamine kinase activity         1
## 10 GO:0004352                glutamate dehydrogenase (NAD+) activity         1
## 11 GO:0004561                 alpha-N-acetylglucosaminidase activity         1
## 12 GO:0004568                                     chitinase activity         1
## 13 GO:0004321                       fatty-acyl-CoA synthase activity         1
##    Significant Expected   Fisher               type
## 1            5     0.32 6.60e-06 Biological.Process
## 2            3     0.41 6.60e-03 Biological.Process
## 3            1     0.03 2.91e-02 Biological.Process
## 4            1     0.03 2.91e-02 Biological.Process
## 5            6     1.85 7.60e-03 Molecular.Function
## 6            2     0.17 1.08e-02 Molecular.Function
## 7            1     0.03 3.42e-02 Molecular.Function
## 8            1     0.03 3.42e-02 Molecular.Function
## 9            1     0.03 3.42e-02 Molecular.Function
## 10           1     0.03 3.42e-02 Molecular.Function
## 11           1     0.03 3.42e-02 Molecular.Function
## 12           1     0.03 3.42e-02 Molecular.Function
## 13           1     0.03 3.42e-02 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 317 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(11 eliminated genes)
```

```
## 
## 	 Level 11:	7 nodes to be scored	(155 eliminated genes)
```

```
## 
## 	 Level 10:	13 nodes to be scored	(203 eliminated genes)
```

```
## 
## 	 Level 9:	23 nodes to be scored	(227 eliminated genes)
```

```
## 
## 	 Level 8:	25 nodes to be scored	(301 eliminated genes)
```

```
## 
## 	 Level 7:	40 nodes to be scored	(386 eliminated genes)
```

```
## 
## 	 Level 6:	55 nodes to be scored	(570 eliminated genes)
```

```
## 
## 	 Level 5:	63 nodes to be scored	(813 eliminated genes)
```

```
## 
## 	 Level 4:	45 nodes to be scored	(909 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(1097 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1296 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1382 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 230 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	12 nodes to be scored	(9 eliminated genes)
```

```
## 
## 	 Level 8:	17 nodes to be scored	(151 eliminated genes)
```

```
## 
## 	 Level 7:	30 nodes to be scored	(478 eliminated genes)
```

```
## 
## 	 Level 6:	50 nodes to be scored	(548 eliminated genes)
```

```
## 
## 	 Level 5:	42 nodes to be scored	(844 eliminated genes)
```

```
## 
## 	 Level 4:	40 nodes to be scored	(1314 eliminated genes)
```

```
## 
## 	 Level 3:	22 nodes to be scored	(1866 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(2159 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2607 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0019700                  organic phosphonate catabolic process        12
## 2  GO:0003179                              heart valve morphogenesis         4
## 3  GO:0001889                                      liver development         8
## 4  GO:0006021                          inositol biosynthetic process         1
## 5  GO:0002230 positive regulation of defense response to virus by...         1
## 6  GO:0006884                                cell volume homeostasis         1
## 7  GO:0000014     single-stranded DNA endodeoxyribonuclease activity         3
## 8  GO:0005262                               calcium channel activity        24
## 9  GO:0001409 guanine nucleotide transmembrane transporter activi...        30
## 10 GO:0004252                     serine-type endopeptidase activity        53
## 11 GO:0003676                                   nucleic acid binding       497
## 12 GO:0005245                 voltage-gated calcium channel activity         7
##    Significant Expected  Fisher               type
## 1            5     0.43 0.00003 Biological.Process
## 2            2     0.14 0.00710 Biological.Process
## 3            2     0.28 0.03010 Biological.Process
## 4            1     0.04 0.03540 Biological.Process
## 5            1     0.04 0.03540 Biological.Process
## 6            1     0.04 0.03540 Biological.Process
## 7            2     0.16 0.00820 Molecular.Function
## 8            6     1.28 0.01030 Molecular.Function
## 9            5     1.60 0.01950 Molecular.Function
## 10           7     2.83 0.02080 Molecular.Function
## 11          23    26.50 0.03810 Molecular.Function
## 12           2     0.37 0.04970 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 819 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	12 nodes to be scored	(6 eliminated genes)
```

```
## 
## 	 Level 12:	19 nodes to be scored	(23 eliminated genes)
```

```
## 
## 	 Level 11:	32 nodes to be scored	(179 eliminated genes)
```

```
## 
## 	 Level 10:	47 nodes to be scored	(244 eliminated genes)
```

```
## 
## 	 Level 9:	83 nodes to be scored	(291 eliminated genes)
```

```
## 
## 	 Level 8:	92 nodes to be scored	(416 eliminated genes)
```

```
## 
## 	 Level 7:	116 nodes to be scored	(578 eliminated genes)
```

```
## 
## 	 Level 6:	142 nodes to be scored	(794 eliminated genes)
```

```
## 
## 	 Level 5:	128 nodes to be scored	(1090 eliminated genes)
```

```
## 
## 	 Level 4:	76 nodes to be scored	(1176 eliminated genes)
```

```
## 
## 	 Level 3:	50 nodes to be scored	(1311 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(1376 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1408 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 495 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	5 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 10:	9 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 9:	25 nodes to be scored	(18 eliminated genes)
```

```
## 
## 	 Level 8:	45 nodes to be scored	(163 eliminated genes)
```

```
## 
## 	 Level 7:	85 nodes to be scored	(510 eliminated genes)
```

```
## 
## 	 Level 6:	117 nodes to be scored	(669 eliminated genes)
```

```
## 
## 	 Level 5:	84 nodes to be scored	(1077 eliminated genes)
```

```
## 
## 	 Level 4:	71 nodes to be scored	(1590 eliminated genes)
```

```
## 
## 	 Level 3:	36 nodes to be scored	(2207 eliminated genes)
```

```
## 
## 	 Level 2:	13 nodes to be scored	(2505 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2680 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0002064                            epithelial cell development         4
## 2  GO:0000184 nuclear-transcribed mRNA catabolic process, nonsens...        10
## 3  GO:0001732 formation of cytoplasmic translation initiation com...         6
## 4  GO:0000302                    response to reactive oxygen species         6
## 5  GO:0000398                         mRNA splicing, via spliceosome        63
## 6  GO:0000086                  G2/M transition of mitotic cell cycle         7
## 7  GO:0007224                           smoothened signaling pathway         2
## 8  GO:0003964                   RNA-directed DNA polymerase activity       122
## 9  GO:0003676                                   nucleic acid binding       497
## 10 GO:0005388                    P-type calcium transporter activity         4
## 11 GO:0005164                 tumor necrosis factor receptor binding         3
## 12 GO:0003735                     structural constituent of ribosome        13
## 13 GO:0005385            zinc ion transmembrane transporter activity         4
## 14 GO:0004623                              phospholipase A2 activity         4
## 15 GO:0004517                         nitric-oxide synthase activity         2
## 16 GO:0004365 glyceraldehyde-3-phosphate dehydrogenase (NAD+) (ph...         2
## 17 GO:0005112                                          Notch binding         2
## 18 GO:0003727                            single-stranded RNA binding         2
## 19 GO:0003723                                            RNA binding       128
##    Significant Expected  Fisher               type
## 1            4     0.86 0.00210 Biological.Process
## 2            6     2.15 0.00910 Biological.Process
## 3            4     1.29 0.02190 Biological.Process
## 4            4     1.29 0.02190 Biological.Process
## 5           19    13.57 0.03050 Biological.Process
## 6            4     1.51 0.04260 Biological.Process
## 7            2     0.43 0.04630 Biological.Process
## 8           41    26.11 0.00096 Molecular.Function
## 9          122   106.35 0.00113 Molecular.Function
## 10           4     0.86 0.00208 Molecular.Function
## 11           3     0.64 0.00976 Molecular.Function
## 12           7     2.78 0.01013 Molecular.Function
## 13           3     0.86 0.03279 Molecular.Function
## 14           3     0.86 0.03279 Molecular.Function
## 15           2     0.43 0.04573 Molecular.Function
## 16           2     0.43 0.04573 Molecular.Function
## 17           2     0.43 0.04573 Molecular.Function
## 18           2     0.43 0.04573 Molecular.Function
## 19          34    27.39 0.04878 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 302 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	11 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	12 nodes to be scored	(150 eliminated genes)
```

```
## 
## 	 Level 9:	19 nodes to be scored	(176 eliminated genes)
```

```
## 
## 	 Level 8:	21 nodes to be scored	(220 eliminated genes)
```

```
## 
## 	 Level 7:	29 nodes to be scored	(278 eliminated genes)
```

```
## 
## 	 Level 6:	45 nodes to be scored	(444 eliminated genes)
```

```
## 
## 	 Level 5:	64 nodes to be scored	(701 eliminated genes)
```

```
## 
## 	 Level 4:	48 nodes to be scored	(818 eliminated genes)
```

```
## 
## 	 Level 3:	34 nodes to be scored	(1115 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(1279 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1378 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 183 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	7 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	8 nodes to be scored	(148 eliminated genes)
```

```
## 
## 	 Level 7:	22 nodes to be scored	(444 eliminated genes)
```

```
## 
## 	 Level 6:	38 nodes to be scored	(469 eliminated genes)
```

```
## 
## 	 Level 5:	39 nodes to be scored	(720 eliminated genes)
```

```
## 
## 	 Level 4:	31 nodes to be scored	(1057 eliminated genes)
```

```
## 
## 	 Level 3:	23 nodes to be scored	(1811 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(2063 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2608 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0006886                        intracellular protein transport         5
## 2  GO:0001731         formation of translation preinitiation complex         1
## 3  GO:0000904         cell morphogenesis involved in differentiation         1
## 4  GO:0001937 negative regulation of endothelial cell proliferati...         1
## 5  GO:0000712      resolution of meiotic recombination intermediates         1
## 6  GO:0008218                                        bioluminescence        10
## 7  GO:0001965                        G-protein alpha-subunit binding        16
## 8  GO:0004149 dihydrolipoyllysine-residue succinyltransferase act...         1
## 9  GO:0005315 inorganic phosphate transmembrane transporter activ...         1
## 10 GO:0004748 ribonucleoside-diphosphate reductase activity, thio...         1
## 11 GO:0004017                              adenylate kinase activity         1
## 12 GO:0004108                         citrate (Si)-synthase activity         1
## 13 GO:0004152                  dihydroorotate dehydrogenase activity         1
## 14 GO:0004505                 phenylalanine 4-monooxygenase activity         1
## 15 GO:0004615                            phosphomannomutase activity         1
## 16 GO:0003874           6-pyruvoyltetrahydropterin synthase activity         1
## 17 GO:0004067                                  asparaginase activity         1
##    Significant Expected Fisher               type
## 1            2     0.15 0.0078 Biological.Process
## 2            1     0.03 0.0291 Biological.Process
## 3            1     0.03 0.0291 Biological.Process
## 4            1     0.03 0.0291 Biological.Process
## 5            1     0.03 0.0291 Biological.Process
## 6            2     0.29 0.0320 Biological.Process
## 7            4     0.50 0.0012 Molecular.Function
## 8            1     0.03 0.0313 Molecular.Function
## 9            1     0.03 0.0313 Molecular.Function
## 10           1     0.03 0.0313 Molecular.Function
## 11           1     0.03 0.0313 Molecular.Function
## 12           1     0.03 0.0313 Molecular.Function
## 13           1     0.03 0.0313 Molecular.Function
## 14           1     0.03 0.0313 Molecular.Function
## 15           1     0.03 0.0313 Molecular.Function
## 16           1     0.03 0.0313 Molecular.Function
## 17           1     0.03 0.0313 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 488 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	5 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 12:	10 nodes to be scored	(2 eliminated genes)
```

```
## 
## 	 Level 11:	19 nodes to be scored	(147 eliminated genes)
```

```
## 
## 	 Level 10:	22 nodes to be scored	(221 eliminated genes)
```

```
## 
## 	 Level 9:	46 nodes to be scored	(255 eliminated genes)
```

```
## 
## 	 Level 8:	48 nodes to be scored	(371 eliminated genes)
```

```
## 
## 	 Level 7:	61 nodes to be scored	(483 eliminated genes)
```

```
## 
## 	 Level 6:	81 nodes to be scored	(610 eliminated genes)
```

```
## 
## 	 Level 5:	83 nodes to be scored	(867 eliminated genes)
```

```
## 
## 	 Level 4:	57 nodes to be scored	(1040 eliminated genes)
```

```
## 
## 	 Level 3:	39 nodes to be scored	(1188 eliminated genes)
```

```
## 
## 	 Level 2:	13 nodes to be scored	(1297 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1405 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 335 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	16 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 8:	26 nodes to be scored	(155 eliminated genes)
```

```
## 
## 	 Level 7:	42 nodes to be scored	(474 eliminated genes)
```

```
## 
## 	 Level 6:	76 nodes to be scored	(616 eliminated genes)
```

```
## 
## 	 Level 5:	66 nodes to be scored	(973 eliminated genes)
```

```
## 
## 	 Level 4:	60 nodes to be scored	(1437 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(2080 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(2399 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2635 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0019700                  organic phosphonate catabolic process        12
## 2 GO:0002064                            epithelial cell development         4
## 3 GO:0002218                   activation of innate immune response        15
## 4 GO:0001707                                     mesoderm formation         4
## 5 GO:0003179                              heart valve morphogenesis         4
## 6 GO:0008218                                        bioluminescence        10
## 7 GO:0003682                                      chromatin binding        13
## 8 GO:0001409 guanine nucleotide transmembrane transporter activi...        30
## 9 GO:0005245                 voltage-gated calcium channel activity         7
##   Significant Expected  Fisher               type
## 1           6     0.97 0.00015 Biological.Process
## 2           3     0.32 0.00194 Biological.Process
## 3           5     1.21 0.00491 Biological.Process
## 4           2     0.32 0.03485 Biological.Process
## 5           2     0.32 0.03485 Biological.Process
## 6           3     0.81 0.04051 Biological.Process
## 7           5     1.28 0.00600 Molecular.Function
## 8           7     2.96 0.02400 Molecular.Function
## 9           3     0.69 0.02500 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 253 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	9 nodes to be scored	(155 eliminated genes)
```

```
## 
## 	 Level 10:	10 nodes to be scored	(208 eliminated genes)
```

```
## 
## 	 Level 9:	16 nodes to be scored	(240 eliminated genes)
```

```
## 
## 	 Level 8:	19 nodes to be scored	(284 eliminated genes)
```

```
## 
## 	 Level 7:	29 nodes to be scored	(305 eliminated genes)
```

```
## 
## 	 Level 6:	40 nodes to be scored	(440 eliminated genes)
```

```
## 
## 	 Level 5:	50 nodes to be scored	(629 eliminated genes)
```

```
## 
## 	 Level 4:	39 nodes to be scored	(789 eliminated genes)
```

```
## 
## 	 Level 3:	25 nodes to be scored	(1062 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1250 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1371 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 227 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	13 nodes to be scored	(10 eliminated genes)
```

```
## 
## 	 Level 8:	18 nodes to be scored	(155 eliminated genes)
```

```
## 
## 	 Level 7:	31 nodes to be scored	(470 eliminated genes)
```

```
## 
## 	 Level 6:	41 nodes to be scored	(603 eliminated genes)
```

```
## 
## 	 Level 5:	43 nodes to be scored	(861 eliminated genes)
```

```
## 
## 	 Level 4:	36 nodes to be scored	(1218 eliminated genes)
```

```
## 
## 	 Level 3:	24 nodes to be scored	(1918 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(2229 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2569 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0003341                                        cilium movement        20
## 2  GO:0000082                  G1/S transition of mitotic cell cycle       104
## 3  GO:0000972 transcription-dependent tethering of RNA polymerase...         1
## 4  GO:0002224                   toll-like receptor signaling pathway         1
## 5  GO:0006884                                cell volume homeostasis         1
## 6  GO:0000340                      RNA 7-methylguanosine cap binding         4
## 7  GO:0004252                     serine-type endopeptidase activity        53
## 8  GO:0005245                 voltage-gated calcium channel activity         7
## 9  GO:0004714 transmembrane receptor protein tyrosine kinase acti...         2
## 10 GO:0004458          D-lactate dehydrogenase (cytochrome) activity         1
## 11 GO:0002161                        aminoacyl-tRNA editing activity         1
## 12 GO:0003980 UDP-glucose:glycoprotein glucosyltransferase activi...         1
## 13 GO:0004022                  alcohol dehydrogenase (NAD+) activity         1
## 14 GO:0004485               methylcrotonoyl-CoA carboxylase activity         1
## 15 GO:0001758                         retinal dehydrogenase activity         1
## 16 GO:0004334                           fumarylacetoacetase activity         1
## 17 GO:0004427             inorganic diphosphate phosphatase activity         1
## 18 GO:0042802                              identical protein binding         1
## 19 GO:0005005                 transmembrane-ephrin receptor activity         1
## 20 GO:0004368 glycerol-3-phosphate dehydrogenase (quinone) activi...         1
## 21 GO:0005381            iron ion transmembrane transporter activity         1
## 22 GO:0004149 dihydrolipoyllysine-residue succinyltransferase act...         1
## 23 GO:0001002 RNA polymerase III type 1 promoter sequence-specifi...         1
## 24 GO:0003810 protein-glutamine gamma-glutamyltransferase activit...         1
## 25 GO:0050218                         propionate-CoA ligase activity         1
##    Significant Expected Fisher               type
## 1            4     0.60 0.0023 Biological.Process
## 2            8     3.10 0.0095 Biological.Process
## 3            1     0.03 0.0298 Biological.Process
## 4            1     0.03 0.0298 Biological.Process
## 5            1     0.03 0.0298 Biological.Process
## 6            2     0.17 0.0098 Molecular.Function
## 7            6     2.21 0.0216 Molecular.Function
## 8            2     0.29 0.0317 Molecular.Function
## 9            2     0.08 0.0414 Molecular.Function
## 10           1     0.04 0.0418 Molecular.Function
## 11           1     0.04 0.0418 Molecular.Function
## 12           1     0.04 0.0418 Molecular.Function
## 13           1     0.04 0.0418 Molecular.Function
## 14           1     0.04 0.0418 Molecular.Function
## 15           1     0.04 0.0418 Molecular.Function
## 16           1     0.04 0.0418 Molecular.Function
## 17           1     0.04 0.0418 Molecular.Function
## 18           1     0.04 0.0418 Molecular.Function
## 19           1     0.04 0.0418 Molecular.Function
## 20           1     0.04 0.0418 Molecular.Function
## 21           1     0.04 0.0418 Molecular.Function
## 22           1     0.04 0.0418 Molecular.Function
## 23           1     0.04 0.0418 Molecular.Function
## 24           1     0.04 0.0418 Molecular.Function
## 25           1     0.04 0.0418 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 2 1 2 1 2 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 314 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(11 eliminated genes)
```

```
## 
## 	 Level 11:	7 nodes to be scored	(155 eliminated genes)
```

```
## 
## 	 Level 10:	13 nodes to be scored	(203 eliminated genes)
```

```
## 
## 	 Level 9:	20 nodes to be scored	(213 eliminated genes)
```

```
## 
## 	 Level 8:	23 nodes to be scored	(269 eliminated genes)
```

```
## 
## 	 Level 7:	38 nodes to be scored	(343 eliminated genes)
```

```
## 
## 	 Level 6:	62 nodes to be scored	(531 eliminated genes)
```

```
## 
## 	 Level 5:	65 nodes to be scored	(746 eliminated genes)
```

```
## 
## 	 Level 4:	38 nodes to be scored	(934 eliminated genes)
```

```
## 
## 	 Level 3:	29 nodes to be scored	(1180 eliminated genes)
```

```
## 
## 	 Level 2:	11 nodes to be scored	(1298 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1384 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 234 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	12 nodes to be scored	(10 eliminated genes)
```

```
## 
## 	 Level 8:	20 nodes to be scored	(50 eliminated genes)
```

```
## 
## 	 Level 7:	32 nodes to be scored	(469 eliminated genes)
```

```
## 
## 	 Level 6:	42 nodes to be scored	(586 eliminated genes)
```

```
## 
## 	 Level 5:	47 nodes to be scored	(874 eliminated genes)
```

```
## 
## 	 Level 4:	42 nodes to be scored	(1208 eliminated genes)
```

```
## 
## 	 Level 3:	24 nodes to be scored	(1993 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(2257 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2562 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0002218                   activation of innate immune response        15
## 2  GO:0000902                                     cell morphogenesis         7
## 3  GO:0001889                                      liver development         8
## 4  GO:0001832                                      blastocyst growth         1
## 5  GO:0006488 dolichol-linked oligosaccharide biosynthetic proces...         1
## 6  GO:0000076                   DNA replication checkpoint signaling         1
## 7  GO:0002230 positive regulation of defense response to virus by...         1
## 8  GO:0005245                 voltage-gated calcium channel activity         7
## 9  GO:0003964                   RNA-directed DNA polymerase activity       122
## 10 GO:0004104                                cholinesterase activity         1
## 11 GO:0001758                         retinal dehydrogenase activity         1
## 12 GO:0004736                          pyruvate carboxylase activity         1
## 13 GO:0003863 3-methyl-2-oxobutanoate dehydrogenase (2-methylprop...         1
## 14 GO:0004435          phosphatidylinositol phospholipase C activity         1
## 15 GO:0004844                      uracil DNA N-glycosylase activity         1
## 16 GO:0015101      organic cation transmembrane transporter activity         1
## 17 GO:0004494                      methylmalonyl-CoA mutase activity         1
## 18 GO:0005381            iron ion transmembrane transporter activity         1
## 19 GO:0004760                  serine-pyruvate transaminase activity         1
## 20 GO:0004683           calmodulin-dependent protein kinase activity         1
## 21 GO:0001002 RNA polymerase III type 1 promoter sequence-specifi...         1
## 22 GO:0005080                               protein kinase C binding         1
## 23 GO:0005324             long-chain fatty acid transporter activity         1
## 24 GO:0005246                     calcium channel regulator activity         1
## 25 GO:0000703 oxidized pyrimidine nucleobase lesion DNA N-glycosy...         1
## 26 GO:0005524                                            ATP binding       263
##    Significant Expected Fisher               type
## 1            3     0.55 0.0160 Biological.Process
## 2            2     0.26 0.0250 Biological.Process
## 3            2     0.29 0.0320 Biological.Process
## 4            1     0.04 0.0370 Biological.Process
## 5            1     0.04 0.0370 Biological.Process
## 6            1     0.04 0.0370 Biological.Process
## 7            1     0.04 0.0370 Biological.Process
## 8            3     0.30 0.0023 Molecular.Function
## 9           12     5.14 0.0045 Molecular.Function
## 10           1     0.04 0.0421 Molecular.Function
## 11           1     0.04 0.0421 Molecular.Function
## 12           1     0.04 0.0421 Molecular.Function
## 13           1     0.04 0.0421 Molecular.Function
## 14           1     0.04 0.0421 Molecular.Function
## 15           1     0.04 0.0421 Molecular.Function
## 16           1     0.04 0.0421 Molecular.Function
## 17           1     0.04 0.0421 Molecular.Function
## 18           1     0.04 0.0421 Molecular.Function
## 19           1     0.04 0.0421 Molecular.Function
## 20           1     0.04 0.0421 Molecular.Function
## 21           1     0.04 0.0421 Molecular.Function
## 22           1     0.04 0.0421 Molecular.Function
## 23           1     0.04 0.0421 Molecular.Function
## 24           1     0.04 0.0421 Molecular.Function
## 25           1     0.04 0.0421 Molecular.Function
## 26          17    11.08 0.0463 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 206 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	8 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	11 nodes to be scored	(142 eliminated genes)
```

```
## 
## 	 Level 9:	16 nodes to be scored	(158 eliminated genes)
```

```
## 
## 	 Level 8:	17 nodes to be scored	(196 eliminated genes)
```

```
## 
## 	 Level 7:	24 nodes to be scored	(225 eliminated genes)
```

```
## 
## 	 Level 6:	30 nodes to be scored	(277 eliminated genes)
```

```
## 
## 	 Level 5:	40 nodes to be scored	(404 eliminated genes)
```

```
## 
## 	 Level 4:	29 nodes to be scored	(632 eliminated genes)
```

```
## 
## 	 Level 3:	19 nodes to be scored	(994 eliminated genes)
```

```
## 
## 	 Level 2:	7 nodes to be scored	(1130 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1258 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 134 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	8 nodes to be scored	(107 eliminated genes)
```

```
## 
## 	 Level 7:	12 nodes to be scored	(453 eliminated genes)
```

```
## 
## 	 Level 6:	24 nodes to be scored	(546 eliminated genes)
```

```
## 
## 	 Level 5:	29 nodes to be scored	(732 eliminated genes)
```

```
## 
## 	 Level 4:	28 nodes to be scored	(1043 eliminated genes)
```

```
## 
## 	 Level 3:	19 nodes to be scored	(1754 eliminated genes)
```

```
## 
## 	 Level 2:	5 nodes to be scored	(1982 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2525 eliminated genes)
```

```
##         GO.ID                                          Term Annotated
## 1  GO:0006527                    arginine catabolic process         1
## 2  GO:0000492                       box C/D snoRNP assembly         1
## 3  GO:0001825                          blastocyst formation         1
## 4  GO:0000076          DNA replication checkpoint signaling         1
## 5  GO:0001516            prostaglandin biosynthetic process         2
## 6  GO:0000050                                    urea cycle         2
## 7  GO:0000028              ribosomal small subunit assembly         3
## 8  GO:0003179                     heart valve morphogenesis         4
## 9  GO:0001708                       cell fate specification         4
## 10 GO:0004408            holocytochrome-c synthase activity         1
## 11 GO:0004516 nicotinate phosphoribosyltransferase activity         1
## 12 GO:0004129                 cytochrome-c oxidase activity         1
## 13 GO:0005381   iron ion transmembrane transporter activity         1
## 14 GO:0097602                 cullin family protein binding         1
## 15 GO:0003995               acyl-CoA dehydrogenase activity         1
## 16 GO:0004222                 metalloendopeptidase activity        15
## 17 GO:0004658            propionyl-CoA carboxylase activity         2
## 18 GO:0004474                      malate synthase activity         2
## 19 GO:0003985       acetyl-CoA C-acetyltransferase activity         2
## 20 GO:0004720             protein-lysine 6-oxidase activity         2
## 21 GO:0005319                    lipid transporter activity         3
##    Significant Expected Fisher               type
## 1            1     0.01  0.011 Biological.Process
## 2            1     0.01  0.011 Biological.Process
## 3            1     0.01  0.011 Biological.Process
## 4            1     0.01  0.011 Biological.Process
## 5            1     0.02  0.023 Biological.Process
## 6            1     0.02  0.023 Biological.Process
## 7            1     0.03  0.034 Biological.Process
## 8            1     0.05  0.045 Biological.Process
## 9            1     0.05  0.045 Biological.Process
## 10           1     0.02  0.016 Molecular.Function
## 11           1     0.02  0.016 Molecular.Function
## 12           1     0.02  0.016 Molecular.Function
## 13           1     0.02  0.016 Molecular.Function
## 14           1     0.02  0.016 Molecular.Function
## 15           1     0.02  0.016 Molecular.Function
## 16           2     0.24  0.024 Molecular.Function
## 17           1     0.03  0.032 Molecular.Function
## 18           1     0.03  0.032 Molecular.Function
## 19           1     0.03  0.032 Molecular.Function
## 20           1     0.03  0.032 Molecular.Function
## 21           1     0.05  0.048 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 247 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	7 nodes to be scored	(159 eliminated genes)
```

```
## 
## 	 Level 10:	10 nodes to be scored	(211 eliminated genes)
```

```
## 
## 	 Level 9:	17 nodes to be scored	(220 eliminated genes)
```

```
## 
## 	 Level 8:	20 nodes to be scored	(263 eliminated genes)
```

```
## 
## 	 Level 7:	28 nodes to be scored	(303 eliminated genes)
```

```
## 
## 	 Level 6:	42 nodes to be scored	(462 eliminated genes)
```

```
## 
## 	 Level 5:	51 nodes to be scored	(680 eliminated genes)
```

```
## 
## 	 Level 4:	32 nodes to be scored	(865 eliminated genes)
```

```
## 
## 	 Level 3:	21 nodes to be scored	(1047 eliminated genes)
```

```
## 
## 	 Level 2:	10 nodes to be scored	(1117 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1220 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 125 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	8 nodes to be scored	(142 eliminated genes)
```

```
## 
## 	 Level 7:	11 nodes to be scored	(455 eliminated genes)
```

```
## 
## 	 Level 6:	23 nodes to be scored	(561 eliminated genes)
```

```
## 
## 	 Level 5:	23 nodes to be scored	(763 eliminated genes)
```

```
## 
## 	 Level 4:	26 nodes to be scored	(1045 eliminated genes)
```

```
## 
## 	 Level 3:	17 nodes to be scored	(1681 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(2048 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2467 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000077                        DNA damage checkpoint signaling         7
## 2  GO:0000972 transcription-dependent tethering of RNA polymerase...         1
## 3  GO:0003352                          regulation of cilium movement         1
## 4  GO:0000712      resolution of meiotic recombination intermediates         1
## 5  GO:0003964                   RNA-directed DNA polymerase activity       122
## 6  GO:0004609              phosphatidylserine decarboxylase activity        13
## 7  GO:0001716                          L-amino-acid oxidase activity         2
## 8  GO:0004658                     propionyl-CoA carboxylase activity         2
## 9  GO:0003987                            acetate-CoA ligase activity         2
## 10 GO:0003676                                   nucleic acid binding       497
##    Significant Expected  Fisher               type
## 1            2     0.15 0.00920 Biological.Process
## 2            1     0.02 0.02200 Biological.Process
## 3            1     0.02 0.02200 Biological.Process
## 4            1     0.02 0.02200 Biological.Process
## 5           10     2.55 0.00016 Molecular.Function
## 6            3     0.27 0.00213 Molecular.Function
## 7            1     0.04 0.04136 Molecular.Function
## 8            1     0.04 0.04136 Molecular.Function
## 9            1     0.04 0.04136 Molecular.Function
## 10          17    10.38 0.04918 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 345 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	6 nodes to be scored	(11 eliminated genes)
```

```
## 
## 	 Level 11:	11 nodes to be scored	(156 eliminated genes)
```

```
## 
## 	 Level 10:	17 nodes to be scored	(213 eliminated genes)
```

```
## 
## 	 Level 9:	25 nodes to be scored	(232 eliminated genes)
```

```
## 
## 	 Level 8:	29 nodes to be scored	(326 eliminated genes)
```

```
## 
## 	 Level 7:	38 nodes to be scored	(419 eliminated genes)
```

```
## 
## 	 Level 6:	58 nodes to be scored	(504 eliminated genes)
```

```
## 
## 	 Level 5:	70 nodes to be scored	(742 eliminated genes)
```

```
## 
## 	 Level 4:	41 nodes to be scored	(920 eliminated genes)
```

```
## 
## 	 Level 3:	32 nodes to be scored	(1190 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(1263 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1362 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 216 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 11:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	10 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 8:	14 nodes to be scored	(150 eliminated genes)
```

```
## 
## 	 Level 7:	28 nodes to be scored	(462 eliminated genes)
```

```
## 
## 	 Level 6:	43 nodes to be scored	(575 eliminated genes)
```

```
## 
## 	 Level 5:	42 nodes to be scored	(884 eliminated genes)
```

```
## 
## 	 Level 4:	38 nodes to be scored	(1225 eliminated genes)
```

```
## 
## 	 Level 3:	23 nodes to be scored	(1976 eliminated genes)
```

```
## 
## 	 Level 2:	12 nodes to be scored	(2274 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2597 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0006813                                potassium ion transport         1
## 2  GO:0001825                                   blastocyst formation         1
## 3  GO:0001951                        intestinal D-glucose absorption         1
## 4  GO:0002265       astrocyte activation involved in immune response         1
## 5  GO:0000076                   DNA replication checkpoint signaling         1
## 6  GO:0000460                                maturation of 5.8S rRNA         1
## 7  GO:0016311                                      dephosphorylation         1
## 8  GO:0004560                            alpha-L-fucosidase activity         6
## 9  GO:0004325                                ferrochelatase activity         1
## 10 GO:0002161                        aminoacyl-tRNA editing activity         1
## 11 GO:0004777 succinate-semialdehyde dehydrogenase (NAD+) activit...         1
## 12 GO:0003980 UDP-glucose:glycoprotein glucosyltransferase activi...         1
## 13 GO:0004850                         uridine phosphorylase activity         1
## 14 GO:0001758                         retinal dehydrogenase activity         1
## 15 GO:0003923                       GPI-anchor transamidase activity         1
## 16 GO:0005381            iron ion transmembrane transporter activity         1
## 17 GO:0004134                    4-alpha-glucanotransferase activity         1
## 18 GO:0004067                                  asparaginase activity         1
## 19 GO:0001002 RNA polymerase III type 1 promoter sequence-specifi...         1
## 20 GO:0003960                       NADPH:quinone reductase activity         1
##    Significant Expected Fisher               type
## 1            1     0.03  0.034 Biological.Process
## 2            1     0.03  0.034 Biological.Process
## 3            1     0.03  0.034 Biological.Process
## 4            1     0.03  0.034 Biological.Process
## 5            1     0.03  0.034 Biological.Process
## 6            1     0.03  0.034 Biological.Process
## 7            1     0.03  0.034 Biological.Process
## 8            2     0.23  0.020 Molecular.Function
## 9            1     0.04  0.039 Molecular.Function
## 10           1     0.04  0.039 Molecular.Function
## 11           1     0.04  0.039 Molecular.Function
## 12           1     0.04  0.039 Molecular.Function
## 13           1     0.04  0.039 Molecular.Function
## 14           1     0.04  0.039 Molecular.Function
## 15           1     0.04  0.039 Molecular.Function
## 16           1     0.04  0.039 Molecular.Function
## 17           1     0.04  0.039 Molecular.Function
## 18           1     0.04  0.039 Molecular.Function
## 19           1     0.04  0.039 Molecular.Function
## 20           1     0.04  0.039 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 206 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 13:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	5 nodes to be scored	(140 eliminated genes)
```

```
## 
## 	 Level 10:	6 nodes to be scored	(203 eliminated genes)
```

```
## 
## 	 Level 9:	12 nodes to be scored	(206 eliminated genes)
```

```
## 
## 	 Level 8:	14 nodes to be scored	(243 eliminated genes)
```

```
## 
## 	 Level 7:	23 nodes to be scored	(287 eliminated genes)
```

```
## 
## 	 Level 6:	37 nodes to be scored	(355 eliminated genes)
```

```
## 
## 	 Level 5:	40 nodes to be scored	(516 eliminated genes)
```

```
## 
## 	 Level 4:	33 nodes to be scored	(717 eliminated genes)
```

```
## 
## 	 Level 3:	22 nodes to be scored	(1032 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1191 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1307 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 156 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	5 nodes to be scored	(100 eliminated genes)
```

```
## 
## 	 Level 7:	11 nodes to be scored	(389 eliminated genes)
```

```
## 
## 	 Level 6:	35 nodes to be scored	(407 eliminated genes)
```

```
## 
## 	 Level 5:	38 nodes to be scored	(628 eliminated genes)
```

```
## 
## 	 Level 4:	37 nodes to be scored	(976 eliminated genes)
```

```
## 
## 	 Level 3:	18 nodes to be scored	(1496 eliminated genes)
```

```
## 
## 	 Level 2:	6 nodes to be scored	(1831 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2301 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0019700                  organic phosphonate catabolic process        12
## 2  GO:0002933                                    lipid hydroxylation         3
## 3  GO:0001731         formation of translation preinitiation complex         1
## 4  GO:0000972 transcription-dependent tethering of RNA polymerase...         1
## 5  GO:0000398                         mRNA splicing, via spliceosome        63
## 6  GO:0000050                                             urea cycle         2
## 7  GO:0002790                                      peptide secretion         2
## 8  GO:0003746                 translation elongation factor activity         7
## 9  GO:0004342             glucosamine-6-phosphate deaminase activity         2
## 10 GO:0004142      diacylglycerol cholinephosphotransferase activity         1
## 11 GO:0004325                                ferrochelatase activity         1
## 12 GO:0004066 asparagine synthase (glutamine-hydrolyzing) activit...         1
## 13 GO:0004067                                  asparaginase activity         1
## 14 GO:0008137               NADH dehydrogenase (ubiquinone) activity         1
## 15 GO:0047830                      D-octopine dehydrogenase activity         1
## 16 GO:0002161                        aminoacyl-tRNA editing activity         1
## 17 GO:0004152                  dihydroorotate dehydrogenase activity         1
## 18 GO:0004334                           fumarylacetoacetase activity         1
## 19 GO:0046982                    protein heterodimerization activity         1
## 20 GO:0003960                       NADPH:quinone reductase activity         1
## 21 GO:0004458          D-lactate dehydrogenase (cytochrome) activity         1
## 22 GO:0004174 electron-transferring-flavoprotein dehydrogenase ac...         1
## 23 GO:0097602                          cullin family protein binding         1
## 24 GO:0000049                                           tRNA binding        30
## 25 GO:0004089                         carbonate dehydratase activity         2
##    Significant Expected    Fisher               type
## 1            5     0.26 0.0000022 Biological.Process
## 2            2     0.06 0.0013000 Biological.Process
## 3            1     0.02 0.0213000 Biological.Process
## 4            1     0.02 0.0213000 Biological.Process
## 5            4     1.34 0.0413000 Biological.Process
## 6            1     0.04 0.0421000 Biological.Process
## 7            1     0.04 0.0421000 Biological.Process
## 8            3     0.17 0.0004400 Molecular.Function
## 9            2     0.05 0.0005700 Molecular.Function
## 10           1     0.02 0.0241400 Molecular.Function
## 11           1     0.02 0.0241400 Molecular.Function
## 12           1     0.02 0.0241400 Molecular.Function
## 13           1     0.02 0.0241400 Molecular.Function
## 14           1     0.02 0.0241400 Molecular.Function
## 15           1     0.02 0.0241400 Molecular.Function
## 16           1     0.02 0.0241400 Molecular.Function
## 17           1     0.02 0.0241400 Molecular.Function
## 18           1     0.02 0.0241400 Molecular.Function
## 19           1     0.02 0.0241400 Molecular.Function
## 20           1     0.02 0.0241400 Molecular.Function
## 21           1     0.02 0.0241400 Molecular.Function
## 22           1     0.02 0.0241400 Molecular.Function
## 23           1     0.02 0.0241400 Molecular.Function
## 24           3     0.72 0.0342800 Molecular.Function
## 25           1     0.05 0.0477000 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 193 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 15:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	2 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 12:	6 nodes to be scored	(4 eliminated genes)
```

```
## 
## 	 Level 11:	10 nodes to be scored	(144 eliminated genes)
```

```
## 
## 	 Level 10:	11 nodes to be scored	(209 eliminated genes)
```

```
## 
## 	 Level 9:	15 nodes to be scored	(223 eliminated genes)
```

```
## 
## 	 Level 8:	13 nodes to be scored	(252 eliminated genes)
```

```
## 
## 	 Level 7:	19 nodes to be scored	(258 eliminated genes)
```

```
## 
## 	 Level 6:	24 nodes to be scored	(379 eliminated genes)
```

```
## 
## 	 Level 5:	35 nodes to be scored	(555 eliminated genes)
```

```
## 
## 	 Level 4:	28 nodes to be scored	(627 eliminated genes)
```

```
## 
## 	 Level 3:	19 nodes to be scored	(838 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(1146 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1293 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 96 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	3 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 7:	10 nodes to be scored	(269 eliminated genes)
```

```
## 
## 	 Level 6:	15 nodes to be scored	(343 eliminated genes)
```

```
## 
## 	 Level 5:	19 nodes to be scored	(650 eliminated genes)
```

```
## 
## 	 Level 4:	21 nodes to be scored	(935 eliminated genes)
```

```
## 
## 	 Level 3:	16 nodes to be scored	(1340 eliminated genes)
```

```
## 
## 	 Level 2:	8 nodes to be scored	(1976 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2486 eliminated genes)
```

```
##        GO.ID                                    Term Annotated Significant
## 1 GO:0002933                     lipid hydroxylation         3           2
## 2 GO:0006836              neurotransmitter transport         6           2
## 3 GO:0006397                         mRNA processing        64           2
## 4 GO:0001503                            ossification        42           3
## 5 GO:0001516      prostaglandin biosynthetic process         2           1
## 6 GO:0003964    RNA-directed DNA polymerase activity       122           7
## 7 GO:0005436     sodium:phosphate symporter activity         1           1
## 8 GO:0004508 steroid 17-alpha-monooxygenase activity        17           2
## 9 GO:0004565             beta-galactosidase activity         3           1
##   Expected  Fisher               type
## 1     0.05 0.00082 Biological.Process
## 2     0.10 0.00399 Biological.Process
## 3     1.09 0.01706 Biological.Process
## 4     0.71 0.03213 Biological.Process
## 5     0.03 0.03374 Biological.Process
## 6     1.71 0.00130 Molecular.Function
## 7     0.01 0.01400 Molecular.Function
## 8     0.24 0.02290 Molecular.Function
## 9     0.04 0.04160 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 161 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 12:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 11:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 10:	4 nodes to be scored	(1 eliminated genes)
```

```
## 
## 	 Level 9:	8 nodes to be scored	(11 eliminated genes)
```

```
## 
## 	 Level 8:	11 nodes to be scored	(28 eliminated genes)
```

```
## 
## 	 Level 7:	18 nodes to be scored	(33 eliminated genes)
```

```
## 
## 	 Level 6:	27 nodes to be scored	(175 eliminated genes)
```

```
## 
## 	 Level 5:	34 nodes to be scored	(587 eliminated genes)
```

```
## 
## 	 Level 4:	26 nodes to be scored	(661 eliminated genes)
```

```
## 
## 	 Level 3:	20 nodes to be scored	(953 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1118 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1287 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 129 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	4 nodes to be scored	(100 eliminated genes)
```

```
## 
## 	 Level 7:	15 nodes to be scored	(407 eliminated genes)
```

```
## 
## 	 Level 6:	25 nodes to be scored	(491 eliminated genes)
```

```
## 
## 	 Level 5:	29 nodes to be scored	(828 eliminated genes)
```

```
## 
## 	 Level 4:	25 nodes to be scored	(1186 eliminated genes)
```

```
## 
## 	 Level 3:	19 nodes to be scored	(1816 eliminated genes)
```

```
## 
## 	 Level 2:	6 nodes to be scored	(2086 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2480 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0000724 double-strand break repair via homologous recombina...        13
## 2  GO:0000184 nuclear-transcribed mRNA catabolic process, nonsens...        10
## 3  GO:0000712      resolution of meiotic recombination intermediates         1
## 4  GO:0006813                                potassium ion transport         1
## 5  GO:0000423                                              mitophagy         2
## 6  GO:0000028                       ribosomal small subunit assembly         3
## 7  GO:0002933                                    lipid hydroxylation         3
## 8  GO:0005524                                            ATP binding       263
## 9  GO:0004108                         citrate (Si)-synthase activity         1
## 10 GO:0004013                        adenosylhomocysteinase activity         1
## 11 GO:0004185                  serine-type carboxypeptidase activity         2
## 12 GO:0004089                         carbonate dehydratase activity         2
## 13 GO:0004517                         nitric-oxide synthase activity         2
## 14 GO:0005201            extracellular matrix structural constituent        17
##    Significant Expected  Fisher               type
## 1            3     0.20 0.00085 Biological.Process
## 2            2     0.16 0.00969 Biological.Process
## 3            1     0.02 0.01559 Biological.Process
## 4            1     0.02 0.01559 Biological.Process
## 5            1     0.03 0.03095 Biological.Process
## 6            1     0.05 0.04608 Biological.Process
## 7            1     0.05 0.04608 Biological.Process
## 8           12     5.02 0.00310 Molecular.Function
## 9            1     0.02 0.01910 Molecular.Function
## 10           1     0.02 0.01910 Molecular.Function
## 11           1     0.04 0.03780 Molecular.Function
## 12           1     0.04 0.03780 Molecular.Function
## 13           1     0.04 0.03780 Molecular.Function
## 14           2     0.32 0.04050 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 406 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	5 nodes to be scored	(5 eliminated genes)
```

```
## 
## 	 Level 11:	10 nodes to be scored	(167 eliminated genes)
```

```
## 
## 	 Level 10:	18 nodes to be scored	(213 eliminated genes)
```

```
## 
## 	 Level 9:	33 nodes to be scored	(237 eliminated genes)
```

```
## 
## 	 Level 8:	40 nodes to be scored	(336 eliminated genes)
```

```
## 
## 	 Level 7:	55 nodes to be scored	(413 eliminated genes)
```

```
## 
## 	 Level 6:	68 nodes to be scored	(597 eliminated genes)
```

```
## 
## 	 Level 5:	78 nodes to be scored	(882 eliminated genes)
```

```
## 
## 	 Level 4:	50 nodes to be scored	(988 eliminated genes)
```

```
## 
## 	 Level 3:	32 nodes to be scored	(1215 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1330 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1387 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 217 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	6 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	12 nodes to be scored	(142 eliminated genes)
```

```
## 
## 	 Level 7:	26 nodes to be scored	(455 eliminated genes)
```

```
## 
## 	 Level 6:	46 nodes to be scored	(573 eliminated genes)
```

```
## 
## 	 Level 5:	49 nodes to be scored	(898 eliminated genes)
```

```
## 
## 	 Level 4:	43 nodes to be scored	(1339 eliminated genes)
```

```
## 
## 	 Level 3:	23 nodes to be scored	(2022 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(2305 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2597 eliminated genes)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0002291 T cell activation via T cell receptor contact with ...        10
## 2 GO:0002674     negative regulation of acute inflammatory response         4
## 3 GO:0002221         pattern recognition receptor signaling pathway        11
## 4 GO:0005524                                            ATP binding       263
## 5 GO:0003676                                   nucleic acid binding       497
## 6 GO:0003824                                     catalytic activity      1042
## 7 GO:0004622                             lysophospholipase activity         4
## 8 GO:0003964                   RNA-directed DNA polymerase activity       122
##   Significant Expected  Fisher               type
## 1           3     0.52 0.01300 Biological.Process
## 2           2     0.21 0.01500 Biological.Process
## 3           3     0.58 0.01700 Biological.Process
## 4          29    15.25 0.00037 Molecular.Function
## 5          34    28.82 0.00101 Molecular.Function
## 6          64    60.43 0.01103 Molecular.Function
## 7           2     0.23 0.01856 Molecular.Function
## 8          12     7.08 0.04743 Molecular.Function
##  Factor w/ 2 levels "0","1": 1 1 1 1 1 1 1 1 1 1 ...
##  - attr(*, "names")= chr [1:30094] "FUN_002326" "FUN_002315" "FUN_002316" "FUN_002303" ...
```

```
## 
## Building most specific GOs .....
```

```
## 	( 272 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 1229 GO terms and 2373 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 1411 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 194 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 14:	1 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 13:	4 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 12:	3 nodes to be scored	(11 eliminated genes)
```

```
## 
## 	 Level 11:	5 nodes to be scored	(159 eliminated genes)
```

```
## 
## 	 Level 10:	8 nodes to be scored	(203 eliminated genes)
```

```
## 
## 	 Level 9:	12 nodes to be scored	(209 eliminated genes)
```

```
## 
## 	 Level 8:	16 nodes to be scored	(249 eliminated genes)
```

```
## 
## 	 Level 7:	18 nodes to be scored	(294 eliminated genes)
```

```
## 
## 	 Level 6:	28 nodes to be scored	(370 eliminated genes)
```

```
## 
## 	 Level 5:	38 nodes to be scored	(483 eliminated genes)
```

```
## 
## 	 Level 4:	30 nodes to be scored	(650 eliminated genes)
```

```
## 
## 	 Level 3:	21 nodes to be scored	(917 eliminated genes)
```

```
## 
## 	 Level 2:	9 nodes to be scored	(1084 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(1228 eliminated genes)
```

```
## 
## Building most specific GOs .....
```

```
## 	( 460 GO terms found. )
```

```
## 
## Build GO DAG topology ..........
```

```
## 	( 909 GO terms and 1190 relations. )
```

```
## 
## Annotating nodes ...............
```

```
## 	( 2776 genes annotated to the GO terms. )
```

```
## 
## 			 -- Weight01 Algorithm -- 
## 
## 		 the algorithm is scoring 145 nontrivial nodes
## 		 parameters: 
## 			 test statistic: fisher
```

```
## 
## 	 Level 10:	2 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 9:	5 nodes to be scored	(0 eliminated genes)
```

```
## 
## 	 Level 8:	7 nodes to be scored	(10 eliminated genes)
```

```
## 
## 	 Level 7:	18 nodes to be scored	(348 eliminated genes)
```

```
## 
## 	 Level 6:	27 nodes to be scored	(360 eliminated genes)
```

```
## 
## 	 Level 5:	29 nodes to be scored	(579 eliminated genes)
```

```
## 
## 	 Level 4:	27 nodes to be scored	(931 eliminated genes)
```

```
## 
## 	 Level 3:	22 nodes to be scored	(1698 eliminated genes)
```

```
## 
## 	 Level 2:	7 nodes to be scored	(1934 eliminated genes)
```

```
## 
## 	 Level 1:	1 nodes to be scored	(2276 eliminated genes)
```

```
##         GO.ID                                                   Term Annotated
## 1  GO:0006598                            polyamine catabolic process         3
## 2  GO:0042060                                          wound healing         1
## 3  GO:0006813                                potassium ion transport         1
## 4  GO:0001867                  complement activation, lectin pathway        13
## 5  GO:0001578                           microtubule bundle formation         2
## 6  GO:0003985                acetyl-CoA C-acetyltransferase activity         2
## 7  GO:0003676                                   nucleic acid binding       497
## 8  GO:0003923                       GPI-anchor transamidase activity         1
## 9  GO:0004060                 arylamine N-acetyltransferase activity         1
## 10 GO:0003913                                DNA photolyase activity         1
## 11 GO:0003997                              acyl-CoA oxidase activity         1
## 12 GO:0003944 N-acetylglucosamine-1-phosphodiester alpha-N-acetyl...         1
## 13 GO:0004777 succinate-semialdehyde dehydrogenase (NAD+) activit...         1
## 14 GO:0004748 ribonucleoside-diphosphate reductase activity, thio...         1
## 15 GO:0004176                       ATP-dependent peptidase activity         2
##    Significant Expected  Fisher               type
## 1            2     0.05 0.00089 Biological.Process
## 2            1     0.02 0.01772 Biological.Process
## 3            1     0.02 0.01772 Biological.Process
## 4            2     0.23 0.02087 Biological.Process
## 5            1     0.04 0.03513 Biological.Process
## 6            2     0.05 0.00057 Molecular.Function
## 7           19    12.00 0.00264 Molecular.Function
## 8            1     0.02 0.02414 Molecular.Function
## 9            1     0.02 0.02414 Molecular.Function
## 10           1     0.02 0.02414 Molecular.Function
## 11           1     0.02 0.02414 Molecular.Function
## 12           1     0.02 0.02414 Molecular.Function
## 13           1     0.02 0.02414 Molecular.Function
## 14           1     0.02 0.02414 Molecular.Function
## 15           1     0.05 0.04770 Molecular.Function
```

``` r
head(results_all_targets)
```

```
##        GO.ID                                                   Term Annotated
## 1 GO:0000082                  G1/S transition of mitotic cell cycle       104
## 2 GO:0001172                            RNA-templated transcription         1
## 3 GO:0002230 positive regulation of defense response to virus by...         1
## 4 GO:0001913                           T cell mediated cytotoxicity         1
## 5 GO:0004176                       ATP-dependent peptidase activity         2
## 6 GO:0003964                   RNA-directed DNA polymerase activity       122
##   Significant Expected  Fisher               type         miRNA
## 1           9     2.65 0.00080 Biological.Process Cluster_10452
## 2           1     0.03 0.02550 Biological.Process Cluster_10452
## 3           1     0.03 0.02550 Biological.Process Cluster_10452
## 4           1     0.03 0.02550 Biological.Process Cluster_10452
## 5           2     0.06 0.00099 Molecular.Function Cluster_10452
## 6          11     3.87 0.00135 Molecular.Function Cluster_10452
```