article Open AccessTop 10% cited
SNPhylo: a pipeline to construct a phylogenetic tree from huge SNP data
BMC Genomics · 2014 · Vol. 15(1) · pp. 162–162
Tae‐Ho Lee✉(University of Georgia)Hui Guo(University of Georgia)Xiyin Wang(TED University)Changsoo Kim(University of Georgia)Andrew H. Paterson(University of Georgia)
Abstract
Using SNPhylo, users can easily produce a reliable phylogenetic tree from a large SNP data file. Thus, this pipeline can help a researcher focus more on interpretation of the results of analysis of voluminous data sets, rather than manipulations necessary to accomplish the analysis.
Genomics and Phylogenetic StudiesGenetic diversity and population structureRNA and protein synthesis mechanismsPhylogenetic treePhylogenetic networkPipeline (software)BiologyTree (set theory)PhylogeneticsComputational phylogeneticsData miningSNPComputer science
MeSH terms
Bayes TheoremPhylogenyOryzaSoftwareGlycine maxCluster AnalysisArabidopsisComputational BiologyInternetPolymorphism, Single Nucleotide
Funding
- Georgia Advanced Computing Resource Center, University of Georgia
Citations
628
FWCI
10.53
field-weighted impact
References
24
Percentile
99%
vs. same field & year
Citations per year
References
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
Nature · 2000 · 9,320 citations
The Pattern of Polymorphism in Arabidopsis thaliana
PLoS Biology · 2005 · 987 citations
New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
Systematic Biology · 2010 · 18,702 citations
phangorn: phylogenetic analysis in R
Bioinformatics · 2010 · 3,921 citations
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0
Molecular Biology and Evolution · 2007 · 28,792 citations
MUSCLE: multiple sequence alignment with high accuracy and high throughput
Nucleic Acids Research · 2004 · 45,964 citations
APE: Analyses of Phylogenetics and Evolution in R language
Bioinformatics · 2004 · 12,504 citations
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