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TreeFam: a curated database of phylogenetic trees of animal gene families

TreeFam is a database of phylogenetic trees of gene families found in animals. It aims to develop a curated resource that presents the accurate evolutionary history of all animal gene families, as well as reliable ortholog and paralog assignments. Curated families are being added progressively, base...

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Detalles Bibliográficos
Autores principales: Li, Heng, Coghlan, Avril, Ruan, Jue, Coin, Lachlan James, Hériché, Jean-Karim, Osmotherly, Lara, Li, Ruiqiang, Liu, Tao, Zhang, Zhang, Bolund, Lars, Wong, Gane Ka-Shu, Zheng, Weimou, Dehal, Paramvir, Wang, Jun, Durbin, Richard
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2006
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347480/
https://www.ncbi.nlm.nih.gov/pubmed/16381935
http://dx.doi.org/10.1093/nar/gkj118
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author Li, Heng
Coghlan, Avril
Ruan, Jue
Coin, Lachlan James
Hériché, Jean-Karim
Osmotherly, Lara
Li, Ruiqiang
Liu, Tao
Zhang, Zhang
Bolund, Lars
Wong, Gane Ka-Shu
Zheng, Weimou
Dehal, Paramvir
Wang, Jun
Durbin, Richard
author_facet Li, Heng
Coghlan, Avril
Ruan, Jue
Coin, Lachlan James
Hériché, Jean-Karim
Osmotherly, Lara
Li, Ruiqiang
Liu, Tao
Zhang, Zhang
Bolund, Lars
Wong, Gane Ka-Shu
Zheng, Weimou
Dehal, Paramvir
Wang, Jun
Durbin, Richard
author_sort Li, Heng
collection PubMed
description TreeFam is a database of phylogenetic trees of gene families found in animals. It aims to develop a curated resource that presents the accurate evolutionary history of all animal gene families, as well as reliable ortholog and paralog assignments. Curated families are being added progressively, based on seed alignments and trees in a similar fashion to Pfam. Release 1.1 of TreeFam contains curated trees for 690 families and automatically generated trees for another 11 646 families. These represent over 128 000 genes from nine fully sequenced animal genomes and over 45 000 other animal proteins from UniProt; ∼40–85% of proteins encoded in the fully sequenced animal genomes are included in TreeFam. TreeFam is freely available at and .
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spelling pubmed-13474802006-01-25 TreeFam: a curated database of phylogenetic trees of animal gene families Li, Heng Coghlan, Avril Ruan, Jue Coin, Lachlan James Hériché, Jean-Karim Osmotherly, Lara Li, Ruiqiang Liu, Tao Zhang, Zhang Bolund, Lars Wong, Gane Ka-Shu Zheng, Weimou Dehal, Paramvir Wang, Jun Durbin, Richard Nucleic Acids Res Article TreeFam is a database of phylogenetic trees of gene families found in animals. It aims to develop a curated resource that presents the accurate evolutionary history of all animal gene families, as well as reliable ortholog and paralog assignments. Curated families are being added progressively, based on seed alignments and trees in a similar fashion to Pfam. Release 1.1 of TreeFam contains curated trees for 690 families and automatically generated trees for another 11 646 families. These represent over 128 000 genes from nine fully sequenced animal genomes and over 45 000 other animal proteins from UniProt; ∼40–85% of proteins encoded in the fully sequenced animal genomes are included in TreeFam. TreeFam is freely available at and . Oxford University Press 2006-01-01 2005-12-28 /pmc/articles/PMC1347480/ /pubmed/16381935 http://dx.doi.org/10.1093/nar/gkj118 Text en © The Author 2006. Published by Oxford University Press. All rights reserved
spellingShingle Article
Li, Heng
Coghlan, Avril
Ruan, Jue
Coin, Lachlan James
Hériché, Jean-Karim
Osmotherly, Lara
Li, Ruiqiang
Liu, Tao
Zhang, Zhang
Bolund, Lars
Wong, Gane Ka-Shu
Zheng, Weimou
Dehal, Paramvir
Wang, Jun
Durbin, Richard
TreeFam: a curated database of phylogenetic trees of animal gene families
title TreeFam: a curated database of phylogenetic trees of animal gene families
title_full TreeFam: a curated database of phylogenetic trees of animal gene families
title_fullStr TreeFam: a curated database of phylogenetic trees of animal gene families
title_full_unstemmed TreeFam: a curated database of phylogenetic trees of animal gene families
title_short TreeFam: a curated database of phylogenetic trees of animal gene families
title_sort treefam: a curated database of phylogenetic trees of animal gene families
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347480/
https://www.ncbi.nlm.nih.gov/pubmed/16381935
http://dx.doi.org/10.1093/nar/gkj118
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