Genomics

CUT&RUN and CUT&Tag

This book chapter is part of the Informatics Technology for Cancer Research Education Resource, designed for the Informatics Technology …

Savonen C, Zheng Y , Henikoff S, Ahmad K

Expanded Encyclopedias of DNA Elements in the Human and Mouse Genomes

The human and mouse genomes contain instructions that specify RNAs and proteins and govern the timing, magnitude, and cellular context …

The ENCODE Project Consortium, Admin

Perspectives on ENCODE

The ENCODE Project Consortium, Snyder MP, Gingeras TR, Moore JE, Weng Z, Gerstein MB, Ren B, Hardison RC, Stamatoyannopoulos JA, Graveley BR, Feingold EA, Pazin MJ

Generative modeling of multi-mapping reads with mHi-C advances analysis of Hi-C studies

Current Hi-C analysis approaches are unable to account for reads that align to multiple locations, and hence underestimate biological …

Zheng Y , Ay F, Keleş S

permseq

R package for mapping protein-DNA interactions in highly repetitive genomic regions using prior-enhanced read mapping

Ye Zheng . (2016)

Nov 1, 2016

Perm-seq: Mapping Protein-DNA Interactions in Segmental Duplication and Highly Repetitive Regions of Genomes with Prior-enhanced Read Mapping

Segmental duplications and other highly repetitive regions of genomes contribute significantly to cells’ regulatory programs. …

Zeng X, Li B, Welch R, Rojo C, Zheng Y , Dewey CN, Keleş S