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SUMMARY:Allelic-Specific analysis for pooled ChIP-Seq data - Ines.deSantia
 go\, Markowetz Group
DTSTART:20130719T150000Z
DTEND:20130719T160000Z
UID:TALK46102@talks.cam.ac.uk
CONTACT:Nicholas Shannon
DESCRIPTION:We have developed SNP calling and allelic-specific analysis pi
 peline for pooled ChIP-seq data that works without pre-existing genotype i
 nformation of the cell line or individual. We have used a methodology that
  takes into account the considerable amount of noise in ChIP-seq data sets
 \, calculates differentially bound sites using DiffBind and allelic-specif
 ic TF binding using iASeq and generates a list of putative regulatory SNPs
 . We tested this pipeline using ER and FOXA1 ChIP-seq data in three breast
  cancer cell lines MCF7\, ZR751 and T47D and compared different approaches
  to our analysis. I will highlight some of the challenges encountered and 
 report on the outcome so far.
LOCATION:215
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