Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource. (Q34444444)

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10 March 2020

title

Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource (English)

1 reference

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10 March 2020

1 reference

6

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10 March 2020

Thomas J Sharpton

1

1 reference

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10 March 2020

Guillaume Jospin

2

1 reference

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10 March 2020

Morgan Langille

4

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10 March 2020

5

Katherine S Pollard

1 reference

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10 March 2020

author name string

Dongying Wu

3

1 reference

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10 March 2020

publication date

13 October 2012

1 reference

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10 March 2020

1 reference

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10 March 2020

volume

13

1 reference

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10 March 2020

page(s)

264

1 reference

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Creative Commons Attribution 2.0 Generic

10 March 2020

copyright license

start time

13 October 2012

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

1 reference

April 2022 Public Data File from Crossref

exact match

https://scigraph.springernature.com/pub.10.1186/1471-2105-13-264

0 references

cites work

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1 reference

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The Pfam protein families database

6 July 2018

1 reference

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eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges

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Accelerated Profile HMM Searches

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Multiple sequence alignment: a major challenge to large-scale phylogenetics

6 July 2018

1 reference

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Community cyberinfrastructure for Advanced Microbial Ecology Research and Analysis: the CAMERA resource

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New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0

6 July 2018

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Metagenomes from high-temperature chemotrophic systems reveal geochemical controls on microbial community structure and function

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FastTree 2--approximately maximum-likelihood trees for large alignments

6 July 2018

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A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

6 July 2018

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FIGfams: yet another set of protein families

6 July 2018

1 reference

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Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives

6 July 2018

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Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world

6 July 2018

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The National Center for Biotechnology Information's Protein Clusters Database

6 July 2018

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HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot

6 July 2018

1 reference

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The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates

6 July 2018

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The universal protein resource (UniProt)

6 July 2018

1 reference

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The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families

6 July 2018

1 reference

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PhyloFacts: an online structural phylogenomic encyclopedia for protein functional and structural classification

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3481395

Automated protein function prediction--the genomic challenge

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3481395

Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome"

6 July 2018

1 reference

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MUSCLE: multiple sequence alignment with high accuracy and high throughput

6 July 2018

1 reference

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The TIGRFAMs database of protein families

6 July 2018

1 reference

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PANTHER: a browsable database of gene products organized by biological function, using curated protein family and subfamily classification

6 July 2018

1 reference

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An efficient algorithm for large-scale detection of protein families

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3481395

Genome sequence of enterohaemorrhagic Escherichia coli O157:H7

6 July 2018

1 reference

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KEGG: kyoto encyclopedia of genes and genomes

6 July 2018

1 reference

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A genomic perspective on protein families

6 July 2018

1 reference

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6 July 2018

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InterPro protein classification.

6 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-13-264

Errors in genome annotation

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23061897

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2105-13-264

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23061897%20AND%20SRC:MED&resulttype=core&format=json

journals/bmcbi/SharptonJWLPE12

10 March 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23061897%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23061897%20AND%20SRC:MED&resulttype=core&format=json