Journal
JOURNAL OF HEREDITY
Volume 108, Issue 4, Pages 431-437Publisher
OXFORD UNIV PRESS INC
DOI: 10.1093/jhered/esx033
Keywords
Bioinformatics and computational genetics; Molecular systematics and phylogenetics; bioinformatics; genomics; index of translation elongation; phylogenetic analysis based on pairwise alignment; translation initiation analysis
Categories
Funding
- Discovery Grant of Natural Science and Engineering Research Council of Canada (NSERC) [RGPIN/261252-2013]
Ask authors/readers for more resources
DAMBE is a comprehensive software workbench for data analysis in molecular biology, phylogenetics, and evolution. Several important new functions have been added since version 5 of DAMBE: 1) comprehensive genomic profiling of translation initiation efficiency of different genes in different prokaryotic species, 2) a new index of translation elongation (I-TE) that takes into account both tRNA-mediated selection and background mutation on codon-anticodon adaptation, 3) a new and accurate phylogenetic approach based on pairwise alignment only, which is useful for highly divergent sequences from which a reliable multiple sequence alignment is difficult to obtain. Many other functions have been updated and improved including PWM for motif characterization, Gibbs sampler for de novo motif discovery, hidden Markov models for protein secondary structure prediction, self-organizing map for nonlinear clustering of transcriptomic data, comprehensive sequence alignment, and phylogenetic functions. DAMBE features a graphic, user-friendly and intuitive interface, and is freely available from .
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available