ChIP-Seq Top2 peak-calling

From wiki
Revision as of 13:54, 30 May 2017 by Rf (talk | contribs)
Jump to: navigation, search

Introduction

ChIP-Seq on Mutant vs. Wildtype, two states, 4 sets of of pairs each, for a total of 16 pairs of paired-end datasets.

Raw data description

Mutant: 

ULS1INP_S6_L001_R1_001.fastq.gz
ULS1INP_S6_L001_R2_001.fastq.gz
ULS1INP_S6_L002_R1_001.fastq.gz
ULS1INP_S6_L002_R2_001.fastq.gz
ULS1INP_S6_L003_R1_001.fastq.gz
ULS1INP_S6_L003_R2_001.fastq.gz
ULS1INP_S6_L004_R1_001.fastq.gz
ULS1INP_S6_L004_R2_001.fastq.gz
USL1IP_S7_L001_R1_001.fastq.gz
USL1IP_S7_L001_R2_001.fastq.gz
USL1IP_S7_L002_R1_001.fastq.gz
USL1IP_S7_L002_R2_001.fastq.gz
USL1IP_S7_L003_R1_001.fastq.gz
USL1IP_S7_L003_R2_001.fastq.gz
USL1IP_S7_L004_R1_001.fastq.gz
USL1IP_S7_L004_R2_001.fastq.gz

Wildtype: 

WTINP_S4_L001_R1_001.fastq.gz
WTINP_S4_L001_R2_001.fastq.gz
WTINP_S4_L002_R1_001.fastq.gz
WTINP_S4_L002_R2_001.fastq.gz
WTINP_S4_L003_R1_001.fastq.gz
WTINP_S4_L003_R2_001.fastq.gz
WTINP_S4_L004_R1_001.fastq.gz
WTINP_S4_L004_R2_001.fastq.gz
WTIP_S5_L001_R1_001.fastq.gz
WTIP_S5_L001_R2_001.fastq.gz
WTIP_S5_L002_R1_001.fastq.gz
WTIP_S5_L002_R2_001.fastq.gz
WTIP_S5_L003_R1_001.fastq.gz
WTIP_S5_L003_R2_001.fastq.gz
WTIP_S5_L004_R1_001.fastq.gz
WTIP_S5_L004_R2_001.fastq.gz

Raw dataset quality analysis

Using FASTQC and them MultiQC.

Results linked http:stab.st-andrews.ac.uk/stab/top2/fastqc.html here.

Papers

Retrieved from "http://stab.st-andrews.ac.uk/wiki/index.php?title=ChIP-Seq_Top2_peak-calling&oldid=1732"