TIGRFAMs: A protein family resource for the functional identification of proteins

D. H. Haft, B. J. Loftus, D. L. Richardson, F. Yang, Jonathan A Eisen, I. T. Paulsen, O. White

Research output: Contribution to journalArticle

207 Citations (Scopus)

Abstract

TIGRFAMs is a collection of protein families featuring curated multiple sequence alignments, hidden Markov models and associated information designed to support the automated functional identification of proteins by sequence homology. We introduce the term 'equivalog' to describe members of a set of homologous proteins that are conserved with respect to function since their last common ancestor. Related proteins are grouped into equivalog families where possible, and otherwise into protein families with other hierarchically defined homology types. TIGRFAMs currently contains over 800 protein families, available for searching or downloading at www.tigr.org/TIGRFAMs. Classification by equivalog family, where achievable, complements classification by orthology, superfamily, domain or motif. It provides the information best suited for automatic assignment of specific functions to proteins from large-scale genome sequencing projects.

Original languageEnglish (US)
Pages (from-to)41-43
Number of pages3
JournalNucleic Acids Research
Volume29
Issue number1
StatePublished - Jan 1 2001
Externally publishedYes

Fingerprint

Proteins
Amino Acid Sequence Homology
Sequence Alignment
Genome

ASJC Scopus subject areas

  • Genetics

Cite this

Haft, D. H., Loftus, B. J., Richardson, D. L., Yang, F., Eisen, J. A., Paulsen, I. T., & White, O. (2001). TIGRFAMs: A protein family resource for the functional identification of proteins. Nucleic Acids Research, 29(1), 41-43.

TIGRFAMs : A protein family resource for the functional identification of proteins. / Haft, D. H.; Loftus, B. J.; Richardson, D. L.; Yang, F.; Eisen, Jonathan A; Paulsen, I. T.; White, O.

In: Nucleic Acids Research, Vol. 29, No. 1, 01.01.2001, p. 41-43.

Research output: Contribution to journalArticle

Haft, DH, Loftus, BJ, Richardson, DL, Yang, F, Eisen, JA, Paulsen, IT & White, O 2001, 'TIGRFAMs: A protein family resource for the functional identification of proteins', Nucleic Acids Research, vol. 29, no. 1, pp. 41-43.
Haft DH, Loftus BJ, Richardson DL, Yang F, Eisen JA, Paulsen IT et al. TIGRFAMs: A protein family resource for the functional identification of proteins. Nucleic Acids Research. 2001 Jan 1;29(1):41-43.
Haft, D. H. ; Loftus, B. J. ; Richardson, D. L. ; Yang, F. ; Eisen, Jonathan A ; Paulsen, I. T. ; White, O. / TIGRFAMs : A protein family resource for the functional identification of proteins. In: Nucleic Acids Research. 2001 ; Vol. 29, No. 1. pp. 41-43.
@article{298ae6325f66426fa1f9e4c1582c6658,
title = "TIGRFAMs: A protein family resource for the functional identification of proteins",
abstract = "TIGRFAMs is a collection of protein families featuring curated multiple sequence alignments, hidden Markov models and associated information designed to support the automated functional identification of proteins by sequence homology. We introduce the term 'equivalog' to describe members of a set of homologous proteins that are conserved with respect to function since their last common ancestor. Related proteins are grouped into equivalog families where possible, and otherwise into protein families with other hierarchically defined homology types. TIGRFAMs currently contains over 800 protein families, available for searching or downloading at www.tigr.org/TIGRFAMs. Classification by equivalog family, where achievable, complements classification by orthology, superfamily, domain or motif. It provides the information best suited for automatic assignment of specific functions to proteins from large-scale genome sequencing projects.",
author = "Haft, {D. H.} and Loftus, {B. J.} and Richardson, {D. L.} and F. Yang and Eisen, {Jonathan A} and Paulsen, {I. T.} and O. White",
year = "2001",
month = "1",
day = "1",
language = "English (US)",
volume = "29",
pages = "41--43",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "1",

}

TY - JOUR

T1 - TIGRFAMs

T2 - A protein family resource for the functional identification of proteins

AU - Haft, D. H.

AU - Loftus, B. J.

AU - Richardson, D. L.

AU - Yang, F.

AU - Eisen, Jonathan A

AU - Paulsen, I. T.

AU - White, O.

PY - 2001/1/1

Y1 - 2001/1/1

N2 - TIGRFAMs is a collection of protein families featuring curated multiple sequence alignments, hidden Markov models and associated information designed to support the automated functional identification of proteins by sequence homology. We introduce the term 'equivalog' to describe members of a set of homologous proteins that are conserved with respect to function since their last common ancestor. Related proteins are grouped into equivalog families where possible, and otherwise into protein families with other hierarchically defined homology types. TIGRFAMs currently contains over 800 protein families, available for searching or downloading at www.tigr.org/TIGRFAMs. Classification by equivalog family, where achievable, complements classification by orthology, superfamily, domain or motif. It provides the information best suited for automatic assignment of specific functions to proteins from large-scale genome sequencing projects.

AB - TIGRFAMs is a collection of protein families featuring curated multiple sequence alignments, hidden Markov models and associated information designed to support the automated functional identification of proteins by sequence homology. We introduce the term 'equivalog' to describe members of a set of homologous proteins that are conserved with respect to function since their last common ancestor. Related proteins are grouped into equivalog families where possible, and otherwise into protein families with other hierarchically defined homology types. TIGRFAMs currently contains over 800 protein families, available for searching or downloading at www.tigr.org/TIGRFAMs. Classification by equivalog family, where achievable, complements classification by orthology, superfamily, domain or motif. It provides the information best suited for automatic assignment of specific functions to proteins from large-scale genome sequencing projects.

UR - http://www.scopus.com/inward/record.url?scp=0035175673&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=0035175673&partnerID=8YFLogxK

M3 - Article

C2 - 11125044

AN - SCOPUS:0035175673

VL - 29

SP - 41

EP - 43

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - 1

ER -