ESS++: a C++ objected-oriented algorithm for Bayesian stochastic search model exploration

被引：21

作者：

Bottolo, Leonardo ^{[1
,2
]}

Chadeau-Hyam, Marc ^{[2
]}

Hastie, David I. ^{[2
]}

Langley, Sarah R. ^{[1
]}

Petretto, Enrico ^{[1
,2
]}

Tiret, Laurence ^{[3
]}

Tregouet, David ^{[3
]}

Richardson, Sylvia ^{[2
]}

机构：

[1] Univ London Imperial Coll Sci Technol & Med, Fac Med, MRC Clin Sci Ctr, London SW7 2AZ, England

[2] Univ London Imperial Coll Sci Technol & Med, Fac Med, Dept Epidemiol & Biostat, London SW7 2AZ, England

[3] Univ Paris 06, INSERM, UMRS 937, Paris, France

来源：

BIOINFORMATICS | 2011年 / 27卷 / 04期

基金：

英国医学研究理事会; 英国惠康基金;

关键词：

D O I：

10.1093/bioinformatics/btq684

中图分类号：

Q5 [生物化学];

学科分类号：

070307 [化学生物学];

摘要：

ESS++ is a C++ implementation of a fully Bayesian variable selection approach for single and multiple response linear regression. ESS++ works well both when the number of observations is larger than the number of predictors and in the 'large p, small n' case. In the current version, ESS++ can handle several hundred observations, thousands of predictors and a few responses simultaneously. The core engine of ESS++ for the selection of relevant predictors is based on Evolutionary Monte Carlo. Our implementation is open source, allowing community-based alterations and improvements.

引用

页码：587 / 588

页数：2

共 6 条

[1]

Identification of Cd36 (Fat) as an insulin-resistance gene causing defective fatty acid and glucose metabolism in hypertensive rats [J].

Aitman, TJ ;

Glazier, AM ;

Wallace, CA ;

Cooper, LD ;

Norsworthy, PJ ;

Wahid, FN ;

Al-Majali, KM ;

Trembling, PM ;

Mann, CJ ;

Shoulders, CC ;

Graf, D ;

St Lezin, E ;

Kurtz, TW ;

Kren, V ;

Pravenec, M ;

Ibrahimi, A ;

Abumrad, NA ;

Stanton, LW ;

Scott, J .

NATURE GENETICS, 1999, 21 (01) :76-83

[2]

Evolutionary Stochastic Search for Bayesian Model Exploration [J].

Bottolo, Leonard ;

Richardson, Sylvia .

BAYESIAN ANALYSIS, 2010, 5 (03) :583-618

[3]

Shotgun Stochastic search for "Large p" regression [J].

Hans, Chris ;

Dobra, Adrian ;

West, Mike .

JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION, 2007, 102 (478) :507-516

[4]

A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk [J].

Heinig, Matthias ;

Petretto, Enrico ;

Wallace, Chris ;

Bottolo, Leonardo ;

Rotival, Maxime ;

Lu, Han ;

Li, Yoyo ;

Sarwar, Rizwan ;

Langley, Sarah R. ;

Bauerfeind, Anja ;

Hummel, Oliver ;

Lee, Young-Ae ;

Paskas, Svetlana ;

Rintisch, Carola ;

Saar, Kathrin ;

Cooper, Jason ;

Buchan, Rachel ;

Gray, Elizabeth E. ;

Cyster, Jason G. ;

Erdmann, Jeanette ;

Hengstenberg, Christian ;

Maouche, Seraya ;

Ouwehand, Willem H. ;

Rice, Catherine M. ;

Samani, Nilesh J. ;

Schunkert, Heribert ;

Goodall, Alison H. ;

Schulz, Herbert ;

Roider, Helge G. ;

Vingron, Martin ;

Blankenberg, Stefan ;

Muenzel, Thomas ;

Zeller, Tanja ;

Szymczak, Silke ;

Ziegler, Andreas ;

Tiret, Laurence ;

Smyth, Deborah J. ;

Pravenec, Michal ;

Aitman, Timothy J. ;

Cambien, Francois ;

Clayton, David ;

Todd, John A. ;

Hubner, Norbert ;

Cook, Stuart A. .

NATURE, 2010, 467 (7314) :460-464

[5]

New Insights into the Genetic Control of Gene Expression using a Bayesian Multi-tissue Approach [J].

Petretto, Enrico ;

Bottolo, Leonardo ;

Langley, Sarah R. ;

Heinig, Matthias ;

McDermott-Roe, Chris ;

Sarwar, Rizwan ;

Pravenec, Michal ;

Huebner, Norbert ;

Aitman, Timothy J. ;

Cook, Stuart A. ;

Richardson, Sylvia .

PLOS COMPUTATIONAL BIOLOGY, 2010, 6 (04)

[6]

Imputation-based analysis of association studies: Candidate regions and quantitative traits [J].

Servin, Bertrand ;

Stephens, Matthew .

PLOS GENETICS, 2007, 3 (07) :1296-1308

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