Chromatin Immunoprecipitation Sequencing
GPTKB entity
Statements (47)
| Predicate | Object |
|---|---|
| gptkbp:instanceOf |
genomics technique
|
| gptkbp:abbreviation |
ChIP-seq
|
| gptkbp:advantage |
high resolution
genome-wide coverage unbiased detection of binding sites |
| gptkbp:analyzes |
motif analysis
peak calling algorithms differential binding analysis protein-DNA complexes |
| gptkbp:appliesTo |
cancer research
developmental biology epigenetics gene regulation studies |
| gptkbp:developedBy |
2007
|
| https://www.w3.org/2000/01/rdf-schema#label |
Chromatin Immunoprecipitation Sequencing
|
| gptkbp:limitation |
potential for background noise
requires high-quality antibodies requires large cell numbers |
| gptkbp:method |
combines chromatin immunoprecipitation with DNA sequencing
|
| gptkbp:notablePublication |
Barski et al., Cell, 2007
Johnson et al., Science, 2007 |
| gptkbp:output |
genome-wide binding profiles
|
| gptkbp:predecessor |
gptkb:ChIP-chip
|
| gptkbp:relatedTo |
gptkb:ATAC-seq
gptkb:RNA-seq DNase-seq |
| gptkbp:repository |
gptkb:ArrayExpress
gptkb:ENCODE gptkb:GEO |
| gptkbp:requires |
next-generation sequencing
antibodies specific to target protein |
| gptkbp:step |
library preparation
high-throughput sequencing immunoprecipitation DNA purification bioinformatic analysis chromatin fragmentation crosslinking proteins to DNA |
| gptkbp:type |
sequencing reads
binding profiles peak calls |
| gptkbp:usedFor |
identifying DNA-protein interactions
mapping binding sites of DNA-associated proteins studying transcription factor binding studying histone modifications |
| gptkbp:bfsParent |
gptkb:ChIP-Seq
|
| gptkbp:bfsLayer |
7
|