Protocols

Puma specifications

Information


Unique identifier OMICS_04409
Name Puma
Alternative name Penalized Unified Multiple-locus Association
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Jason G. Mezey

Publication for Penalized Unified Multiple-locus Association

Puma citations

 (2)
call_split

Genome wide association analysis in dogs implicates 99 loci as risk variants for anterior cruciate ligament rupture

2017
PLoS One
PMCID: 5381864
PMID: 28379989
DOI: 10.1371/journal.pone.0173810
call_split See protocol

[…] ed model (LMM) analysis was performed using GCTA (Genome-wide Complex Trait Analysis) [] and GEMMA (Genome-wide Efficient Mixed Model Association) [], software tools optimized for complex trait GWAS. Penalized Unified Multiple-locus Association (PUMA), in which all SNPs are analyzed together, was also used to aid detection of weaker associations often found in complex traits []. We used logistic r […]

library_books

pLARmEB: integration of least angle regression with empirical Bayes for multilocus genome wide association studies

2017
Heredity
PMCID: 5436030
PMID: 28295030
DOI: 10.1038/hdy.2017.8

[…] ting small-effect QTLs. To overcome these problems, therefore, multilocus model methods have been suggested (; ), for example, a Bayesian-inspired penalized maximum likelihood approach (; ) and PUMA (Penalized Unified Multiple-locus Association; ). These methods can be used if the number of variables in the multilocus model is not too large. Recent strategies for high-dimensional modeling have foc […]

Puma institution(s)
Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY, USA

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