GAT: a simulation framework for testing the association of genomic intervals.
GAT: a simulation framework for testing the association of genomic intervals.
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DOI：
10.1093/bioinformatics/btt343
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发表时间：
2013-08-15
期刊：
影响因子：
--
通讯作者：
Lunter G
中科院分区：
文献类型：
--
作者：
Heger A;Webber C;Goodson M;Ponting CP;Lunter G
Motivation: A common question in genomic analysis is whether two sets of genomic intervals overlap significantly. This question arises, for example, when interpreting ChIP-Seq or RNA-Seq data in functional terms. Because genome organization is complex, answering this question is non-trivial. Summary: We present Genomic Association Test (GAT), a tool for estimating the significance of overlap between multiple sets of genomic intervals. GAT implements a null model that the two sets of intervals are placed independently of one another, but allows each set’s density to depend on external variables, for example, isochore structure or chromosome identity. GAT estimates statistical significance based on simulation and controls for multiple tests using the false discovery rate. Availability: GAT’s source code, documentation and tutorials are available at http://code.google.com/p/genomic-association-tester. Contact: andreas.heger@dpag.ox.ac.uk
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影响因子：
9.8
作者：
Church DM;Goodstadt L;Hillier LW;Zody MC;Goldstein S;She X;Bult CJ;Agarwala R;Cherry JL;DiCuccio M;Hlavina W;Kapustin Y;Meric P;Maglott D;Birtle Z;Marques AC;Graves T;Zhou S;Teague B;Potamousis K;Churas C;Place M;Herschleb J;Runnheim R;Forrest D;Amos-Landgraf J;Schwartz DC;Cheng Z;Lindblad-Toh K;Eichler EE;Ponting CP;Mouse Genome Sequencing Consortium
通讯作者：
Mouse Genome Sequencing Consortium
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y
影响因子：
7
作者：
Giardine, B;Riemer, C;Nekrutenko, A
通讯作者：
Nekrutenko, A
影响因子：
7
作者：
Ramagopalan, Sreeram V.;Heger, Andreas;Knight, Julian C.
通讯作者：
Knight, Julian C.
DOI：
10.1073/pnas.1530509100
发表时间：
2003-08-05
影响因子：
11.1
作者：
Storey, JD;Tibshirani, R
通讯作者：
Tibshirani, R