Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 Profile hidden Markov models.

Literature DB >> 9918945

Profile hidden Markov models.

Abstract

The recent literature on profile hidden Markov model (profile HMM) methods and software is reviewed. Profile HMMs turn a multiple sequence alignment into a position-specific scoring system suitable for searching databases for remotely homologous sequences. Profile HMM analyses complement standard pairwise comparison methods for large-scale sequence analysis. Several software implementations and two large libraries of profile HMMs of common protein domains are available. HMM methods performed comparably to threading methods in the CASP2 structure prediction exercise.

Entities: Gene

Mesh：

Substances：
Peptide Library

Year: 1998 PMID： 9918945 DOI： 10.1093/bioinformatics/14.9.755

Source DB: PubMed Journal: Bioinformatics ISSN： 1367-4803 Impact factor: 6.937

Keyword Cloud
Cited

2000 in total

1. The Comprehensive Microbial Resource.

Authors: J D Peterson; L A Umayam; T Dickinson; E K Hickey; O White
Journal: Nucleic Acids Res Date: 2001-01-01 Impact factor: 16.971

2. TIGRFAMs: a protein family resource for the functional identification of proteins.

Authors: D H Haft; B J Loftus; D L Richardson; F Yang; J A Eisen; I T Paulsen; O White
Journal: Nucleic Acids Res Date: 2001-01-01 Impact factor: 16.971

3. HYR, an extracellular module involved in cellular adhesion and related to the immunoglobulin-like fold.

Authors: I Callebaut; D Gilgès; I Vigon; J P Mornon
Journal: Protein Sci Date: 2000-07 Impact factor: 6.725

4. Systematic identification of novel protein domain families associated with nuclear functions.

Authors: Tobias Doerks; Richard R Copley; Jörg Schultz; Chris P Ponting; Peer Bork
Journal: Genome Res Date: 2002-01 Impact factor: 9.043

5. BETAWRAP: successful prediction of parallel beta -helices from primary sequence reveals an association with many microbial pathogens.

Authors: P Bradley; L Cowen; M Menke; J King; B Berger
Journal: Proc Natl Acad Sci U S A Date: 2001-12-18 Impact factor: 11.205

Profile hidden Markov models.

1. The Comprehensive Microbial Resource.

2. TIGRFAMs: a protein family resource for the functional identification of proteins.

3. HYR, an extracellular module involved in cellular adhesion and related to the immunoglobulin-like fold.

4. Systematic identification of novel protein domain families associated with nuclear functions.

5. BETAWRAP: successful prediction of parallel beta -helices from primary sequence reveals an association with many microbial pathogens.

6. CDD: a database of conserved domain alignments with links to domain three-dimensional structure.

7. HERVd: database of human endogenous retroviruses.

8. Comparative genomics and evolution of proteins involved in RNA metabolism.

9. An efficient algorithm for large-scale detection of protein families.

10. Genome-wide analysis of core cell cycle genes in Arabidopsis.