Overview: ChIP-on-chip (chromatin immunoprecipitation-on-chip), also known as Location Analysis (LA), is a high throughput (genome-wide) identification and analysis of DNA fragments that are bound by specific proteins such as histones, transcriptional factors. ChIP-on-chip invovles the following procedures: 1) crosslinking DNA with proteins; 2) sonication of DNA into small pieces; 3) immunoprecipitation of DNA-bound proteins with an antibody; 4) purification of DNA; 5)hybridization of DNA with DNA microarrys.
Protocols
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Whole Genome Amplification (WGA) Protocol for ChIP-chip
(Epigenome Network of Excellence)
new
Based on the low background, reproducibility, and the fact that a single WGA amplified ChIP sample can provide sufficient material for several array hybridizations, we recommend the WGA protocol for ChIP-chip analyses. We have successfully tested our new ChIP amplification protocol on a variety of different factors (E2F family members, KAP1, CtBP2, ZNF217) as well as on histone modifications (H3me3K9, H3me3K27, H3me3K4).Another benefit of the WGA amplification method is the ability to perform a second round of amplification from the initial WGA product if a higher DNA yield is required.
http://www.epigenome-noe.net/researchtools/protoco...
Added: Mon Aug 04 2008, Hits: 6, Reviews: 0 Write review -
ChIP and LM-PCR
(Nimblegen)
This protocol describes the process for immunoprecipitation and amplification by ligation mediated PCR (LM-PCR) of samples derived from cultured eukaryotic cells. Included here are detailed protocols for ChIP sample preparation, including crosslinking, shearing, IP, enrichment, and amplification.
http://genomecenter.ucdavis.edu/expression_analysi...
Added: Sat Mar 01 2008, Hits: 368, Reviews: 0 Write review -
ChIP-Chip Protocol
(OpenWetWare)
This protocol is used with Chromatin Immunoprecipitation to detect the in vivo chromatin binding sites of a protein of interest.
http://openwetware.org/wiki/ChIP/Chip
Added: Sun Mar 04 2007, Hits: 1981, Reviews: 0 Write review Cached -
Protocol for ChIP-on-chip Experiments
(ChIP-on-chip.org)
This multipart protocol describes procedures for 1) Cross-linking of cells and fragmentation and immunoprecipitation of chromatin; 2) Blunting, ligation of linkers to DNA, and amplification by PCR; 3) Labeling of DNA and microarray hybridization; 4) Microarray analysis and identification of in vivo DNA binding sites
http://www.chiponchip.org/protocol.html
Added: Sun Mar 04 2007, Hits: 1592, Reviews: 0 Write review Cached