Posts Tagged ‘chipseq’

PLOS Computational Biology: Discovering Transcription Factor Binding Sites in Highly Repetitive Regions of Genomes with Multi-Read Analysis of ChIP-Seq Data

Sunday, April 3rd, 2016

Discovering TFBSs in…Repetitive Regions of #Genomes with Multi-Read
Analysis CSEM uses EM to refine site occupancy

Chung D, Kuan PF, Li B, SanalKumar R, Liang K, Bresnick E, Dewey C, and Keles S (2011), “Discovering transcription factor binding sites in highly repetitive regions of genomes with multi-read analysis of ChIP-Seq data,” PLoS Computational Biology, 7(7): e1002111


Enhancer Evolution across 20 Mammalian Species: Cell

Saturday, November 28th, 2015

#Enhancer Evolution across 20 Mammal[s is faster than for promoters] by @PaulFlicek lab H3K27ac & H3K4me3 #chipseq

Single-cell ChIP-seq

Friday, October 23rd, 2015

#Singlecell ChIPseq reveals…subpopulations defined by chromatin state Sparse data: on order of 1K uniq. reads/cell

retroelement functional recruitment

Monday, May 12th, 2014

DUX4 binding to #retroelements creates promoters that are active… Highlights #chipseq binding sites in #repeats
PLoS Genet. 2013 Nov;9(11):e1003947. doi:
10.1371/journal.pgen.1003947. Epub 2013 Nov 21.
DUX4 binding to retroelements creates promoters that are active in FSHD muscle and testis.
Young JM, Whiddon JL, Yao Z, Kasinathan B, Snider L, Geng LN, Balog J, Tawil R, van der Maarel SM, Tapscott SJ.