University of Cambridge > Talks.cam > CRI joint computational biology meeting > Allelic-Specific analysis for pooled ChIP-Seq data

Allelic-Specific analysis for pooled ChIP-Seq data

Add to your list(s) Download to your calendar using vCal

If you have a question about this talk, please contact Nicholas Shannon.

We have developed SNP calling and allelic-specific analysis pipeline for pooled ChIP-seq data that works without pre-existing genotype information 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-specific 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.

This talk is part of the CRI joint computational biology meeting series.

Tell a friend about this talk:

This talk is included in these lists:

Note that ex-directory lists are not shown.

 

© 2006-2017 Talks.cam, University of Cambridge. Contact Us | Help and Documentation | Privacy and Publicity