ChIP-on-chip

Known as: ChIP-chip, Chip on chip 
ChIP-on-chip (also known as ChIP-chip) is a technology that combines chromatin immunoprecipitation ('ChIP') with DNA microarray ("chip"). Like… (More)
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AlgorithmAndurilChIP-exoComputational epigenetics
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Bioinformatics

Papers overview

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2015
2015
Hidden Markov Models for ChIP-on-Chip Analysis
February 15, 2013 Type Package Title Hidden Markov Models for ChIP-on-Chip Analysis Version 1.0-5 Date 2012-03-19 Author Peter… (More)
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2012
2012
Identifying biologically interpretable transcription factor knockout targets by jointly analyzing the transcription factor knockout microarray and the ChIP-chip data
Transcription factor knockout microarrays (TFKMs) provide useful information about gene regulation. By using statistical methods… (More)
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Highly Cited
2010
Highly Cited
2010
ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments
MOTIVATION Experiments such as ChIP-chip, ChIP-seq, ChIP-PET and DamID (the four methods referred herein as ChIP-X) are used to… (More)
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2010
2010
Comparing genome-wide chromatin profiles using ChIP-chip or ChIP-seq
MOTIVATION ChIP-chip and ChIP-seq technologies provide genome-wide measurements of various types of chromatin marks at an… (More)
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Highly Cited
2009
Highly Cited
2009
Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data
A major goal of molecular biology is determining the mechanisms that control the transcription of genes. Motif Enrichment… (More)
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2009
2009
CoCAS: a ChIP-on-chip analysis suite
MOTIVATION High-density tiling microarrays are increasingly used in combination with ChIP assays to study transcriptional… (More)
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2008
2008
An integrative ChIP-chip and gene expression profiling to model SMAD regulatory modules
The TGF-β/SMAD pathway is part of a broader signaling network in which crosstalk between pathways occurs. While the molecular… (More)
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2007
2007
ChIPMonk: software for viewing and analysing ChIP-on-chip data
The data from a ChIP-on-chip experiment is produced by a conventional array scanner using conventional microarrays. However the… (More)
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Highly Cited
2005
Highly Cited
2005
A hidden Markov model for analyzing ChIP-chip experiments on genome tiling arrays and its application to p53 binding sequences
MOTIVATION Transcription factors (TFs) regulate gene expression by recognizing and binding to specific regulatory regions on the… (More)
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Highly Cited
2005
Highly Cited
2005
Mining ChIP-chip data for transcription factor and cofactor binding sites
MOTIVATION Identification of single motifs and motif pairs that can be used to predict transcription factor localization in ChIP… (More)
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