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Clustering huge protein sequence sets in linear time.
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scholarly article
1 reference
stated in
Europe PubMed Central
PMCID
6026198
retrieved
5 July 2018
reference URL
http://europepmc.org/abstract/PMC/6026198
title
Clustering huge protein sequence sets in linear time.
(English)
1 reference
stated in
Europe PubMed Central
PMCID
6026198
retrieved
5 July 2018
reference URL
http://europepmc.org/abstract/PMC/6026198
author
Johannes Söding
series ordinal
2
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
Martin Steinegger
series ordinal
1
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
author name string
Martin Steinegger
series ordinal
1
1 reference
stated in
Europe PubMed Central
PMCID
6026198
retrieved
5 July 2018
reference URL
http://europepmc.org/abstract/PMC/6026198
language of work or name
English
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publication date
29 June 2018
1 reference
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Europe PubMed Central
PMCID
6026198
retrieved
5 July 2018
reference URL
http://europepmc.org/abstract/PMC/6026198
published in
Nature Communications
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
volume
9
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
page(s)
2542
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
issue
1
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
copyright license
Creative Commons Attribution 4.0 International
start time
29 June 2018
1 reference
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April 2022 Public Data File from Crossref
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copyrighted
0 references
exact match
https://scigraph.springernature.com/pub.10.1038/s41467-018-04964-5
0 references
cites work
Protein structure determination using metagenome sequence data
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
Mutation effects predicted from sequence co-variation
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
Uniclust databases of clustered and deeply annotated protein sequences and alignments.
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
Mash: fast genome and metagenome distance estimation using MinHash
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
MMseqs software suite for fast and deep clustering and searching of large protein sequence sets
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
The Pfam protein families database: towards a more sustainable future
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
The MG-RAST metagenomics database and portal in 2015
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
ALP & FALP: C++ libraries for pairwise local alignment E-values
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
Gene Ontology Consortium: going forward
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
Fast and sensitive protein alignment using DIAMOND
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
SSW library: an SIMD Smith-Waterman C/C++ library for use in genomic applications
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
IMG/M 4 version of the integrated metagenome comparative analysis system
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
kClust: fast and sensitive clustering of large protein sequence databases
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
CD-HIT: accelerated for clustering the next-generation sequencing data
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
Ultrafast clustering algorithms for metagenomic sequence analysis
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
Functional assignment of metagenomic data: challenges and applications
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
From genomics to metagenomics
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
Next generation sequencing and bioinformatic bottlenecks: the current state of metagenomic data analysis.
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
RAPSearch2: a fast and memory-efficient protein similarity search tool for next-generation sequencing data
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
Search and clustering orders of magnitude faster than BLAST
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
Prodigal: prokaryotic gene recognition and translation initiation site identification
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
The Universal Protein Resource (UniProt)
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
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1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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10 July 2018
Basic local alignment search tool
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
retrieved
10 July 2018
MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6026198
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12 August 2018
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1 reference
stated in
Crossref
reference URL
https://api.crossref.org/works/10.1038%2FS41467-018-04964-5
retrieved
7 January 2021
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inferred from DOI database lookup
Efficient clustering of high-dimensional data sets with application to reference matching
1 reference
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Crossref
reference URL
https://api.crossref.org/works/10.1038%2FS41467-018-04964-5
retrieved
7 January 2021
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Identifiers
DOI
10.1038/S41467-018-04964-5
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
ADS bibcode
2018NatCo...9.2542S
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Dimensions Publication ID
1105107305
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PMCID
6026198
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
PubMed ID
29959318
1 reference
stated in
Europe PubMed Central
PMCID
6026198
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29959318%20AND%20SRC:MED&resulttype=core&format=json
retrieved
6 June 2020
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