| Original author(s) | Yong Zhang, Tao Liu, et al. (original) Tao Liu et al. (MACS2/3) |
|---|---|
| Developer(s) | Tao Liu and contributors |
| Initial release | 2008 |
| Stable release | 3.0.3
/ 20 February 2025 |
| Written in | Python, C |
| Operating system | Cross-platform (Linux, macOS, Windows via WSL) |
| Type | Bioinformatics software, Peak calling |
| License | BSD 3-Clause |
| Website | github |
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Model-based Analysis of ChIP-Seq (MACS) is a bioinformatics software primarily designed to identify genomic regions enriched with reads from chromatin immunoprecipitation sequencing (ChIP-seq) experiments.[1] It uses a peak detection approach based on modeling the characteristic shift in read distributions on the forward and reverse DNA strands. The method was published in 2008 by Yong Zhang, Tao Liu, and colleagues in Genome Biology.[2]
MACS has been cited over 17,000 times, and is routinely used in epiegenetics analyses,[2] particularly for identifying narrow peaks associated with transcription factor binding sites or H3K4me3 histone modifications.[3] MACS is distributed as open-source software under the permissive BSD 3-Clause License.
- ^ Feng, Jianxing; Liu, Tao; Qin, Bo; Zhang, Yong; Liu, Xiaole Shirley (2012-09-01). "Identifying ChIP-seq enrichment using MACS". Nature Protocols. 7 (9): 10.1038/nprot.2012.101. doi:10.1038/nprot.2012.101. PMC 3868217. PMID 22936215.
- ^ a b Zhang, Yong; Liu, Tao; Meyer, Clifford A; Eeckhoute, Jérôme; Johnson, David S; Bernstein, Bradley E; Nusbaum, Chad; Myers, Richard M; Brown, Myles; Li, Wei; Liu, X Shirley (2008-09-17). "Model-based Analysis of ChIP-Seq (MACS)". Genome Biology. 9 (9). doi:10.1186/gb-2008-9-9-r137. hdl:1721.1/59206. ISSN 1474-760X.
- ^ Thomas, Reuben; Thomas, Sean; Holloway, Alisha K; Pollard, Katherine S (2017-05-01). "Features that define the best ChIP-seq peak calling algorithms". Briefings in Bioinformatics. 18 (3): 441–450. doi:10.1093/bib/bbw035. ISSN 1467-5463. PMC 5429005.
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