Ch IP‐Atlas: a data‐mining suite powered by full integration of public Ch IP‐seq data
We have fully integrated public chromatin chromatin immunoprecipitation sequencing (Ch IP‐
seq) and DN ase‐seq data (n> 70,000) derived from six representative model organisms …
seq) and DN ase‐seq data (n> 70,000) derived from six representative model organisms …
ChIP-Atlas 2021 update: a data-mining suite for exploring epigenomic landscapes by fully integrating ChIP-seq, ATAC-seq and Bisulfite-seq data
Abstract ChIP-Atlas (https://chip-atlas. org) is a web service providing both GUI-and API-
based data-mining tools to reveal the architecture of the transcription regulatory landscape …
based data-mining tools to reveal the architecture of the transcription regulatory landscape …
Discovering transcription factor binding sites in highly repetitive regions of genomes with multi-read analysis of ChIP-Seq data
Chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) is
rapidly replacing chromatin immunoprecipitation combined with genome-wide tiling array …
rapidly replacing chromatin immunoprecipitation combined with genome-wide tiling array …
Practical guidelines for the comprehensive analysis of ChIP-seq data
Mapping the chromosomal locations of transcription factors, nucleosomes, histone
modifications, chromatin remodeling enzymes, chaperones, and polymerases is one of the …
modifications, chromatin remodeling enzymes, chaperones, and polymerases is one of the …
Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis
Abstract The Cistrome Data Browser (DB) is a resource of human and mouse cis-regulatory
information derived from ChIP-seq, DNase-seq and ATAC-seq chromatin profiling assays …
information derived from ChIP-seq, DNase-seq and ATAC-seq chromatin profiling assays …
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
SG Landt, GK Marinov, A Kundaje… - Genome …, 2012 - genome.cshlp.org
Chromatin immunoprecipitation (ChIP) followed by high-throughput DNA sequencing (ChIP-
seq) has become a valuable and widely used approach for mapping the genomic location of …
seq) has become a valuable and widely used approach for mapping the genomic location of …
[HTML][HTML] Understanding gene regulatory mechanisms by integrating ChIP-seq and RNA-seq data: statistical solutions to biological problems
C Angelini, V Costa - Frontiers in cell and developmental biology, 2014 - frontiersin.org
The availability of omic data produced from international consortia, as well as from
worldwide laboratories, is offering the possibility both to answer long-standing questions in …
worldwide laboratories, is offering the possibility both to answer long-standing questions in …
ChIP-seq: using high-throughput sequencing to discover protein–DNA interactions
Chromatin immunoprecipitation (ChIP) allows specific protein–DNA interactions to be
isolated. Combining ChIP with high-throughput sequencing reveals the DNA sequence …
isolated. Combining ChIP with high-throughput sequencing reveals the DNA sequence …
MAnorm2 for quantitatively comparing groups of ChIP-seq samples
Eukaryotic gene transcription is regulated by a large cohort of chromatin-associated
proteins, and inferring their differential binding sites between cellular contexts requires a …
proteins, and inferring their differential binding sites between cellular contexts requires a …
Sole-Search: an integrated analysis program for peak detection and functional annotation using ChIP-seq data
KR Blahnik, L Dou, H O'Geen, T McPhillips… - Nucleic acids …, 2010 - academic.oup.com
Next-generation sequencing is revolutionizing the identification of transcription factor
binding sites throughout the human genome. However, the bioinformatics analysis of large …
binding sites throughout the human genome. However, the bioinformatics analysis of large …