共查询到20条相似文献,搜索用时 15 毫秒
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Katarzyna E Kolodziej Farzin Pourfarzad Ernie de Boer Sanja Krpic Frank Grosveld John Strouboulis 《BMC molecular biology》2009,10(1):6-14
Background
Chromatin immunoprecipitation (ChIP) assays coupled to genome arrays (Chip-on-chip) or massive parallel sequencing (ChIP-seq) lead to the genome wide identification of binding sites of chromatin associated proteins. However, the highly variable quality of antibodies and the availability of epitopes in crosslinked chromatin can compromise genomic ChIP outcomes. Epitope tags have often been used as more reliable alternatives. In addition, we have employed protein in vivo biotinylation tagging as a very high affinity alternative to antibodies. In this paper we describe the optimization of biotinylation tagging for ChIP and its coupling to a known epitope tag in providing a reliable and efficient alternative to antibodies. 相似文献2.
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Background
ChIP-Seq, which combines chromatin immunoprecipitation (ChIP) with high-throughput massively parallel sequencing, is increasingly being used for identification of protein-DNA interactions in vivo in the genome. However, to maximize the effectiveness of data analysis of such sequences requires the development of new algorithms that are able to accurately predict DNA-protein binding sites. 相似文献8.
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Shouyong Peng Artyom A Alekseyenko Erica Larschan Mitzi I Kuroda Peter J Park 《BMC bioinformatics》2007,8(1):219
Background
Chromatin immunoprecipitation on tiling arrays (ChIP-chip) has been widely used to investigate the DNA binding sites for a variety of proteins on a genome-wide scale. However, several issues in the processing and analysis of ChIP-chip data have not been resolved fully, including the effect of background (mock control) subtraction and normalization within and across arrays. 相似文献16.
《Epigenetics》2013,8(6):318-321
Next-generation sequencing is poised to unleash dramatic changes in every area of molecular biology. In the past few years, chromatin immunoprecipitation (ChIP) on tiled microarrays (ChIP-chip) has been an important tool for genome-wide mapping of DNA-binding proteins or histone modifications. Now, ChIP followed by direct sequencing of DNA fragments (ChIP-seq) offers superior data with less noise and higher resolution and is likely to replace ChIP-chip in the near future. We will describe advantages of this new technology and outline some of the issues in dealing with the data. ChIP-seq generates considerably larger quantities of data and the most challenging aspect for investigators will be computational and statistical analysis necessary to uncover biological insights hidden in the data. 相似文献
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Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing 总被引:2,自引:0,他引:2
Robertson G Hirst M Bainbridge M Bilenky M Zhao Y Zeng T Euskirchen G Bernier B Varhol R Delaney A Thiessen N Griffith OL He A Marra M Snyder M Jones S 《Nature methods》2007,4(8):651-657
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