---
author: Sam White
toc-title: Contents
toc-depth: 5
toc-location: left
date: 2010-04-16 16:57:49+00:00
layout: post
slug: templated-bead-prep-solid-libraries-yellow-perch-wb-lake-trout-lean-and-sisco-and-herring-go-hws09-libraries
title: Templated Bead Prep SOLiD Libraries - Yellow perch WB, lake trout Lean and
  Sisco, and herring G/O HWS09 libraries
categories:
  - 2010
  - Miscellaneous
tags:
  - 1 G/O HPWS09
  - bead counts
  - gonad
  - lake trout
  - Lean
  - library prep
  - ovary
  - Pacific herring
  - Sisco
  - siscowet
  - SOLiD
  - SOLiD libraries
  - templated bead prep
---

All libraries were prepped according to ABI's "full-scale" bead prep protocol. Initial bead counts were performed using a hemocytometer in a 1:200 dilution:

Formula for calculating bead counts:

Average hemo count x hemo volume x hemo squares x dilution x bead volume

Initial Bead Counts

WB: 111, 96, 90, 100 Average = 99.25 Count: 99.25 x 10 x 25 x 200 x 200 = 9.925 x 10^8 beads

Lean: 101, 100, 108, 108 Average = 104.25 Count: 104.25 x 10 x 25 x 200 x 200 = 1.0425 x 10^9 beads

Sisco: 142, 144, 120, 112 Average = 129.5 Count: 129.5 x 10 x 25 x 200 x 200 = 1.295 x 10^9 beads

HPWS09: 112, 115, 105, 104 Average = 109 Count: 109 x 10 x 25 x 200 x 200 = 1.09 x 10^9 beads

Templated Bead Counts

Templated bead counts were performed using a hemocytometer with a 1:10 dilution:

**WB**: 198, 186, 198, 175 Average = 189.25 Count: 189.25 x 10 x 25 x 10 x 400 = **1.8925 x 10^8 beads**

**Lean**: 253, 259, 236, 244 Average = 248 Count: 248 x 10 x 25 x 10 x 400 = **2.48 x 10^8 beads**

**Sisco**: 267, 241, 252, 255 Average = 253.75 Count: 253.75 x 10 x 25 x 10 x 400 = **2.5375 x 10^8 beads**

**HPWS09**: 193, 193, 172, 186 Average = 186 Count: 186 x 10 x 25 x 10 x 400 = **1.86 x 10^8 beads**

Templated Bead Recovery: Final bead count divided by initial bead count x 100 = % recovery

WB = 1.8925 x 10^8/9.925 x 10^8 x 100 = **19.07%**

Lean = 2.48 x 10^8/1.0425 x 10^9 x 100 = **23.8%**

Sisco = 2.5375 x 10^8/1.295 x 10^9 x 100 = **24.34%**

HPWS09 = 1.86 x 10^8/1.09 x 10^9 x 100 = **17.06%**

Results: Yields of templated beads look fabulous. Recoveries of templated beads are a bit on the high side (desired recoveries are between 5-15%, with 20% being the "cutoff" that Rhonda's lab uses for runs. The Lean and Sisco samples cross this cutoff value. Will consult with Steven to see what how he wants to proceed (i.e. new ePCRs?). Beads stored @ 4C until ready for running on the SOLiD.
