Interpro2GO protocols

View Interpro2GO computational protocol

Interpro2GO statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Gene Ontology annotation chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

Interpro2GO specifications

Information


Unique identifier OMICS_14665
Name Interpro2GO
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


Add your version

Maintainer


  • person_outline Robert Finn <>

Publication for Interpro2GO

Interpro2GO in pipelines

 (2)
2016
PMCID: 5156904
PMID: 27976685
DOI: 10.1038/srep38923

[…] the alignments resulting from diamond against an ncbi-nr database (feb/2016). the read counts were normalized to the smallest number of reads. functional profiling was investigated using the interpro2go database, resulting matrixes were exported using stamp format for the statistical analysis as described above., the correlations between the most abundant microbial functions (i.e., […]

2013
PMCID: 4054779
PMID: 23985316
DOI: 10.1186/gb-2013-14-8-r88

[…] previously [] and shown in table s7 in additional file ). functional annotation information was obtained from the interpro databases using interproscan v4.5 [], go [] terms were annotated via interpro2go and from the curated c. elegans annotation in wormbase (release 235) [] by assigning all go terms shared by all c. elegans genes in a gene family to the h. contortus members […]


To access a full list of citations, you will need to upgrade to our premium service.

Interpro2GO in publications

 (50)
PMCID: 5863696
PMID: 29599790
DOI: 10.3389/fpls.2018.00325

[…] species or in newly sequenced genomes rely on homology transfer based on sequence similarity, including blast2go (conesa et al., ), identification of conserved domains (rentzsch and orengo, ) and interpro2go (burge et al., ). in addition, orthomcl (li et al., ) has been used to identify orthologous relationships between several related genomes using the bidirectional best hits (bbh) strategy […]

PMCID: 5874766
PMID: 29385081
DOI: 10.3390/proteomes6010007

[…] annotations from these databases to experimentally identified proteins are often database-specific, such as the eggnog-mapper [] and interproscan []. in addition, megan6 can be used to carry out interpro2go, kegg, seed and eggnog analysis to determine the distribution of functions amongst expressed proteins in the microbiome []. , beyond mapping functional annotations to identified proteins, […]

PMCID: 5905499
PMID: 29253216
DOI: 10.1093/gigascience/gix125

[…] using interproscan 5 (interproscan, rrid:scr_005829) [] for pfam domains, panther, enzyme comissioned number (ec), and kegg categories. gene ontology annotation was obtained, where possible, from interpro2go and ec2go mappings., sequencing of the h. impetiginosus tree genome generated c. 599 million reads, comprising 73 gbp of sequence data. this represents nearly ×132 the expected sequence […]

PMCID: 5739047
PMID: 29220487
DOI: 10.1093/gbe/evx255

[…] between those method results and go terms as provided by uniprot-goa for electronic annotation methods (http://www.ebi.ac.uk/goa/electronicannotationmethods, last accessed december 7, 2017): interpro2go, hamap2go, ec2go, uniprotkeyword2go, uniprotsubcellular_location2go. the annotation data set was limited to the electronically inferred data to avoid biases in the annotation of certain […]

PMCID: 5559503
PMID: 28861098
DOI: 10.3389/fpls.2017.01416

[…] calculated using the expasy tool (http://web.expasy.org/compute_pi/). the identified proteins were further annotated using interproscan (finn et al., ). the gene ontology terms were inferred using interpro2go (gene ontology consortium, ). subcellular localization of the proteins was assigned using plant-mloc (http://www.csbio.sjtu.edu.cn/bioinf/plant-multi/) and manually translated to gene […]


To access a full list of publications, you will need to upgrade to our premium service.

Interpro2GO institution(s)
European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; Faculty of Life Science and School of Computer Science, The University of Manchester, Manchester, UK; Swiss Institute of Bioinformatics (SIB), CMU, Geneva, Switzerland; Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland; Department of Biochemistry, University of Geneva, Geneva, Switzerland; Pôle Rhone-Alpin de Bio-Informatique (PRABI), Universite Claude Bernard, Villeurbanne, France; European Molecular Laboratory (EMBL), Heidelberg, Germany; Department of Computer Science, University of Bristol, Bristol, UK; J. Craig Venter Institute (JCVI), Chinakville, MD, USA; Protein Information Resource (PIR), Georgetown University Medical Center, WA, DC, USA; Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE, USA; Structural and Molecular Biology Department, University College London, University of London, London, UK; Division of Bioinformatics, Department of Preventive Medicine, University of Southern California, Los Angeles, CA, USA
Interpro2GO funding source(s)
Supported by Biotechnology and Biological Sciences Research Council (BBSRC) [BB/L024136/1]; European Molecular Biology Laboratory (EMBL) core funds.

Interpro2GO reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Interpro2GO