ChIP-exo allows to determine genomic locations of a known protein associated with genomic DNA sequences at near nucleotide resolution using a combination of chromatin immunoprecipitation (ChIP) and lambda exonuclease digestion (exo) followed by high-throughput sequencing
Source text:
(Rhee and Pugh, 2011) Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution. Cell.
A ChIP-exo protocol for map transcription factor (TF) binding genome-wide. This…
A ChIP-exo protocol for map transcription factor (TF) binding genome-wide. This protocol uses an efficient DNA self-circularization step during library preparation. ChIP-nexus protocol combines the…
Strand specific peak-pair calling in ChIP-exo replicates. The cumulative…
Strand specific peak-pair calling in ChIP-exo replicates. The cumulative Skellam distribution function (package 'skellam') is used to detect significant normalised count differences of…
A detection algorithm that identifies regulatory features in ChIP-seq,…
A detection algorithm that identifies regulatory features in ChIP-seq, DNase-seq and FAIRE-seq data more accurately than assay-specific algorithms. The mathematical formalism underlying DFilter…
A bioinformatics tool dedicated to analyze ChIP-exo data: 1) Sequencing depth…
A bioinformatics tool dedicated to analyze ChIP-exo data: 1) Sequencing depth normalization and nucleotide composition bias correction. 2) Signal consolidation and noise reduction. 3) Single base…
A peak caller specifically designed to leverage the increased accuracy of novel…
A peak caller specifically designed to leverage the increased accuracy of novel experimental methods for studying transcription factor (TF) binding in vivo in an unbiased manner. Our emphasis is on…
A method for non-specifically capturing cross-linked chromatin complexes via…
A method for non-specifically capturing cross-linked chromatin complexes via protein carboxylate groups that allows the DNA to be subjected to all downstream chemical treatments. PAtCh-Cap is…
By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.
