This item is non-discoverable
Loading...
Non-discoverable
The Adaptive Evolution Database (TAED): A phylogeny based tool for comparative genomics
Roth, C Betts, MJ Steffansson, P Sælensminde, G Liberles, DA
Roth, C
Betts, MJ
Steffansson, P
Sælensminde, G
Liberles, DA
Citations
Altmetric:
Genre
Journal Article
Date
2005-01-01
Advisor
Committee member
Group
Department
Permanent link to this record
Collections
Research Projects
Organizational Units
Journal Issue
DOI
10.1093/nar/gki090
Abstract
From 138 662 embryophyte (higher plant) and 348 142 chordate genes, 4216 embryophyte and 15 452 chordate gene families were generated. For each of these gene families, multiple sequence alignments, phylogenetic trees, ratios of non-synonymous to synonymous nucleotide substitution rates (Ka/Ks), mappings from gene trees to the NCBI taxonomy and structural links to solved three-dimensional protein structures in the Protein Data Bank (PDB) with Grantham-weighted mutational factors were all calculated. Of the 'gene family trees', 173 embryophyte and 505 chordate branches show Ka/Ks ≫ 1 and are candidates for functional adaptation. The calculated information is available both as a gene family database and as a phylogenetically indexed resource, called 'The Adaptive Evolution Database' (TAED), available at http://www.bioinfo.no /tools/TAED. © Oxford University Press 2005; all rights reserved.
Description
Citation
Citation to related work
Oxford University Press (OUP)
Has part
Nucleic Acids Research
ADA compliance
For Americans with Disabilities Act (ADA) accommodation, including help with reading this content, please contact scholarshare@temple.edu