Model-based Analysis of ChIP-Seq (MACS)

被引：11439

作者：

Zhang, Yong ^{[2
]}

Liu, Tao ^{[2
]}

Meyer, Clifford A. ^{[2
]}

Eeckhoute, Jerome ^{[3
,4
,5
]}

Johnson, David S. ^{[6
]}

Bernstein, Bradley E. ^{[7
,8
,9
,10
,11
]}

Nussbaum, Chad ^{[10
,11
]}

Myers, Richard M. ^{[12
]}

Brown, Myles ^{[3
,4
,5
]}

Li, Wei ^{[1
]}

Liu, X. Shirley ^{[2
]}

机构：

[1] Baylor Coll Med, Dept Mol & Cellular Biol, Dan L Duncan Canc Ctr, Div Biostat, Houston, TX 77030 USA

[2] Harvard Univ, Dana Farber Canc Inst, Dept Biostat & Computat Biol, Sch Publ Hlth, Boston, MA 02115 USA

[3] Brigham & Womens Hosp, Dana Farber Canc Inst, Dept Med Oncol, Div Mol & Cellular Onocl, Boston, MA 02115 USA

[4] Brigham & Womens Hosp, Dept Med, Boston, MA 02115 USA

[5] Harvard Univ, Sch Med, Boston, MA 02115 USA

[6] Gene Secur Network Inc, Redwood City, CA 94063 USA

[7] Harvard Univ, Sch Med, Dept Pathol, Charlestown, MA 02129 USA

[8] Massachusetts Gen Hosp, Ctr Canc Res, Charlestown, MA 02129 USA

[9] Massachusetts Gen Hosp, Mol Pathol Unit, Charlestown, MA 02129 USA

[10] Broad Inst Harvard, Cambridge, MA 02142 USA

[11] MIT, Cambridge, MA 02142 USA

[12] Stanford Univ, Med Ctr, Dept Genet, Stanford, CA 94305 USA

来源：

GENOME BIOLOGY | 2008年 / 9卷 / 09期

关键词：

D O I：

10.1186/gb-2008-9-9-r137

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

We present Model-based Analysis of ChIP-Seq data, MACS, which analyzes data generated by short read sequencers such as Solexa's Genome Analyzer. MACS empirically models the shift size of ChIP-Seq tags, and uses it to improve the spatial resolution of predicted binding sites. MACS also uses a dynamic Poisson distribution to effectively capture local biases in the genome, allowing for more robust predictions. MACS compares favorably to existing ChIP-Seq peak-finding algorithms, and is freely available.

引用

页数：9

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