TaxMan: A taxonomic database manager

BMC Bioinformatics

Volumn 7, Issue , 2006, Pages

  Jones, Martin ^a   Blaxter, Mark ^a  

^a Institute of Evolutionary Biology   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

AUTOMATED ASSEMBLY; CONSENSUS BUILDINGS; MULTIPLE SEQUENCE ALIGNMENTS; PHYLOGENETIC ANALYSIS; PHYLOGENETIC STUDIES; SEQUENCE ACQUISITION; SEQUENCE SIMILARITY; TAXONOMIC DATABASE;

BIOLOGY; DATABASE SYSTEMS; DIGITAL STORAGE; PROTEINS; TOOLS;

GENES;

AMINO ACID SEQUENCE; ARTICLE; AUTOMATION; COMPUTER PROGRAM; DNA SEQUENCE; GENBANK; HUMAN COMPUTER INTERACTION; INFORMATION PROCESSING; PHYLOGENY; PROTEIN DATABASE; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; TAXONOMY; CLASSIFICATION; DATA BASE; GENETIC DATABASE; NUCLEIC ACID DATABASE; TRENDS;

DATABASE MANAGEMENT SYSTEMS; DATABASES, GENETIC; DATABASES, NUCLEIC ACID; PHYLOGENY; SOFTWARE;

EID: 33846628260     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-7-536     Document Type: Article

References (17)

1. Rokas A Williams BL King N Carroll SB Genome-scale approaches to resolving incongruence in molecular phylogenies Nature 2003 425 798-804 10.1038/nature02053 14574403
2. Philippe H Lartillot N Brinkmann H Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia Mol Biol Evol 2005 22 1246-1253 10.1093/molbev/msi111 15703236
3. Stajich JE Block D Boulez K Brenner SE Chervitz SA Dagdigian C Fuellen G Gilbert JGR Korf I Lapp H Lehvaslaiho H Matsalla C Mungall CJ Osborne BI Pocock MR Schattner P Senger M Stein LD Stupka E Wilkinson MD Birney E The Bioperl toolkit: Perl modules for the life sciences Genome Res 2002 12 1611-1618 187536 12368254 10.1101/gr.361602
4. Benson DA Karsch-Mizrachi I Lipman DJ Ostell J Wheeler DL GenBank Nucleic Acids Res 2006 34 D16-20 1347519 16381837 10.1093/nar/gkj157
5. The NCBI Entrez database browser http://www.ncbi.nlm.nih.gov/Entrez/
6. Altschul SF Madden TL Schaffer AA Zhang J Zhang Z Miller W Lipman DJ Gapped BLAST and PSI-BLAST: A new generation of protein database search programs Nucleic Acids Res 1997 25 3389-3402 146917 9254694 10.1093/nar/ 25.17.3389
7. Gordon D Abajian C Green P Consed: A graphical tool for sequence finishing Genome Res 1998 8 195-202 9521923
8. The NCBI taxonomy server http://www.ncbi.nlm.nih.gov/Taxonomy/ taxonomyhome.html/
9. Lee C Grasso C Sharlow MF Multiple sequence alignment using partial order graphs Bioinformatics 2002 18 452-464 10.1093/bioinformatics/ 18.3.452 11934745
10. Olson SA EMBOSS opens up sequence analysis. European Molecular Biology Open Software Suite Brief Bioinform 2002 3 87-91 10.1093/bib/3.1.87 12002227
11. Thompson JD Plewniak F Ripp R Thierry JC Poch O Towards a reliable objective function for multiple sequence alignments J Mol Biol 2001 314 937-951 10.1006/jmbi.2001.5187 11734009
12. Jones M Blaxter M The effect of model choice on phylogenetic inference using mitochondrial sequence data: Lessons from the scorpions Review 2006
13. The HAL project http://aftol.org/pages/Halweb3.htm
14. The Phylota project http://ginger.ucdavis.edu/phylota/
15. Ludwig W Strunk O Westram R Richter L Meier H Buchner A Lai T Steppi S Jobb G Forster W Brettske I Gerber S Ginhart AW Gross O Grumann S Hermann S Jost R Konig A Liss T Lussmann R May M Nonhoff B Reichel B Strehlow R Stamatakis A Stuckmann N Vilbig A Lenke M Ludwig T Bode A Schleifer K ARB: A software environment for sequence data Nucleic Acids Res 2004 32 1363-1371 390282 14985472 10.1093/nar/gkh293
16. The Treeblaster project http://www.bch.umontreal.ca/pepdb/ pepdb_tool.html#TreeBlaste
17. Feijao PC Neiva LS de Azeredo-Espin AML Lessinger AC AMiGA: The arthropodan mitochondrial genomes accessible database Bioinformatics 2006 22 902-903 10.1093/bioinformatics/btl021 16446277