---
author: Sam White
toc-title: Contents
toc-depth: 5
toc-location: left
date: 2015-03-02 23:28:21+00:00
layout: post
slug: library-quality-assessment-c-gigas-oa-larvae-illumina-libraries
title: Library Quality Assessment - C.gigas OA larvae Illumina libraries
categories:
  - 2015
  - Crassostrea gigas larvae OA (2011) bisulfite sequencing
tags:
  - bioanalyzer
  - BS-seq
  - Crassostrea gigas
  - EpiNext Post-Bisulfite DNA Library Preparation Kit
  - Genomics Core Facility
  - larvae
  - library prep
  - OA
  - ocean acidification
  - Pacific oyster
  - University of Oregon
---

Ran the [400ppm library](https://robertslab.github.io/sams-notebook/posts/2015/2015-01-28-bisuflite-ngs-library-prep-c-gigas-larvae-oa-bisulfite-library-quantification//robertslab.github.io/sams-notebook/2015/02/27/bs-seq-library-prep-c-gigas-larvae-oa-1000ppm/) preps on a DNA1000 Assay Chip (Agilent) on the Agilent 2100 Bioanalyzer.



Results:

Data File (XAD): [2100_expert_DNA_1000_DE72902486_2015-03-02_09-18-02.xad](https://eagle.fish.washington.edu/Arabidopsis/Bioanalyzer%20Data/2100%20expert_DNA%201000_DE72902486_2015-03-02_09-18-02.xad)

Electropherogram overlay of both samples:

Red = 400ppm

Blue = 1000ppm

![](https://eagle.fish.washington.edu/Arabidopsis/Bioanalyzer%20Data/20150302_BioanalyzerGigasLarvaeOA400_1000ppm.jpg)(http://eagle.fish.washington.edu/Arabidopsis/Bioanalyzer%20Data/20150302_BioanalyzerGigasLarvaeOA400_1000ppm.jpg)







Measurement data and parameters are here: [20150302_Bioanalyzer_Cgigas_400_1000ppm_BS-Seq](20150302_Bioanalyzer_Cgigas_400_1000ppm_BS-Seq)





Both libraries look good; no adaptor contamination (peak would be present at ~125bp), good library sizes.

Pooled equal quantities of each library, based off the concentration values above, to prepare the sample for sequencing.

<table width="280" style="height: 190px;" >
<tbody >
<tr >

<td >**Component**
</td>

<td >**Volume** (μL)
</td>

<td >**Quantity** (ng)
</td>
</tr>
<tr >

<td >400ppm library
</td>

<td >10
</td>

<td >14.7
</td>
</tr>
<tr >

<td >1000ppm library
</td>

<td >1.09
</td>

<td >14.7
</td>
</tr>
<tr >

<td >Buffer EB
</td>

<td >7.81
</td>

<td >N/A
</td>
</tr>
<tr >

<td >1% Tween20
</td>

<td >2.1
</td>

<td >N/A
</td>
</tr>
<tr >

<td >Total
</td>

<td >21
</td>

<td >N/A
</td>
</tr>
</tbody>
</table>



The pooled libraries will be submitted tomorrow to the [Genomics Core Facility at the Univ. of Oregon](https://gcf.uoregon.edu/) for high-throughput sequencing (100bp, SE) on the HiSeq2500 (Illumina). Sample order #2212.