Simulating systems genetics data with SysGenSIM | Zendy

Andréa Pinna | Zendy; Nicola Soranzo | Zendy; Ina Hoeschele | Zendy; Alberto de la Fuente | Zendy

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Simulating systems genetics data with SysGenSIM

Author(s) -

Andréa Pinna,

Nicola Soranzo,

Ina Hoeschele,

Alberto de la Fuente

Publication year - 2011

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btr407

Subject(s) - computer science , graphical user interface , software , expression quantitative trait loci , source code , inference , data mining , matlab , graphical model , machine learning , artificial intelligence , programming language , biology , gene , genetics , genotype , single nucleotide polymorphism

SysGenSIM is a software package to simulate Systems Genetics (SG) experiments in model organisms, for the purpose of evaluating and comparing statistical and computational methods and their implementations for analyses of SG data [e.g. methods for expression quantitative trait loci (eQTL) mapping and network inference]. SysGenSIM allows the user to select a variety of network topologies, genetic and kinetic parameters to simulate SG data ( genotyping, gene expression and phenotyping) with large gene networks with thousands of nodes. The software is encoded in MATLAB, and a user-friendly graphical user interface is provided.

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