InterProScan statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

InterProScan specifications

Information


Unique identifier OMICS_01479
Name InterProScan
Alternative names InterProScan 2, InterProScan 3, InterProScan 4, InterProScan 5
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A file containing unaligned sequences.
Input format FASTA
Output data Results for protein and nucleotide sequences.
Output format TSV,XML,JSON,GFF,HTML,SVG
Operating system Unix/Linux
Programming languages C++, Java, Perl, Shell (Bash)
License Apache License version 2.0
Computer skills Advanced
Version 5.26-65.0
Stability Stable
Maintained Yes

Download


download.png
galaxy.png

Versioning


No version available

Documentation


Maintainers


  • person_outline Alex Mitchell
  • person_outline Team InterProScan

Additional information


http://www.ebi.ac.uk/interpro/training.html http://www.ebi.ac.uk/interpro/search/sequence-search

Information


Unique identifier OMICS_01479
Name InterProScan
Alternative names InterProScan 2, InterProScan 3, InterProScan 4, InterProScan 5
Interface Web user interface, Application programming interface
Restrictions to use None
Input data A protein sequence.
Input format FASTA
Computer skills Basic
Stability Stable
Maintained No

Documentation


Maintainers


This tool is not maintained anymore.

Additional information


http://www.ebi.ac.uk/interpro/training.html http://www.ebi.ac.uk/interpro/search/sequence-search

Publications for InterProScan

InterProScan citations

 (2161)
library_books

Comparative Genomics Reveals the Core Gene Toolbox for the Fungus Insect Symbiosis

2018
MBio
PMCID: 5954228
PMID: 29764946
DOI: 10.1128/mBio.00636-18

[…] (https://github.com/nextgenusfs/funannotate), employing tools of Augustus (), GeneMark.hmm-ES (), and EVM (). Gene function was inferred from matches to the databases of Pfam (), Merops (), CAZy (), InterProScan (), and Swiss-Prot (). Product descriptions were assigned with homologues with 60% similarity across 60% of the protein length (). CEGMA v2.4.010312 was used to identify the presence of c […]

library_books

First comprehensive analysis of lysine acetylation in Alvinocaris longirostris from the deep sea hydrothermal vents

2018
BMC Genomics
PMCID: 5946511
PMID: 29747590
DOI: 10.1186/s12864-018-4745-3

[…] in functional annotation. Gene Ontology (GO) annotation proteome was derived from the UniProt-GOA database (http://www.ebi.ac.uk/GOA/). If the proteins were not annotated by UniProt-GOA database, the InterProScan (https://www.ebi.ac.uk/interpro) would be applied to annotate by protein sequence alignment method, which was also used for protein domain functional description. Then proteins were then […]

library_books

SolCyc: a database hub at the Sol Genomics Network (SGN) for the manual curation of metabolic networks in Solanum and Nicotiana specific databases

2018
PMCID: 5946812
PMID: 29762652
DOI: 10.1093/database/bay035

[…] h a hit e-value cutoff < 1e-20) of the coding protein genes with the GenBank NR, TAIR10 and SwissProt databases (downloaded on the 21 July 2014). Additionally the protein domains were annotated using InterProScan. Functional annotations were integrated using the program AHRD v2.0.2 (https://github.com/groupschoof/AHRD). […]

call_split

Identification of genes regulating ovary differentiation after pollination in hazel by comparative transcriptome analysis

2018
BMC Plant Biol
PMCID: 5941469
PMID: 29739322
DOI: 10.1186/s12870-018-1296-3
call_split See protocol

[…] fault. We used Blast [] to align unigenes to NT, NR, COG, KEGG and SwissProt to obtain annotations, Blast2GO (Version: v2.5.0; parameters: default) [] with NR annotation to obtain GO annotations, and InterProScan5 [] to obtain InterPro annotations. Clean reads were mapped to unigenes using Bowtie2 (version: v2.1.0) [] with options “q; phred64; sensitive; dpad, 0; gbar, 99999999; mp, 1, 1; np, 1; s […]

library_books

Proteome wide analysis of Anopheles culicifacies mosquito midgut: new insights into the mechanism of refractoriness

2018
BMC Genomics
PMCID: 5941458
PMID: 29739330
DOI: 10.1186/s12864-018-4729-3

[…] urther molecular functions and biological process were identified using GO standards. Conserve domains and signal peptides were identified using SMART programme (http://smart.embl-heidelberg.de/) and Interproscan analysis. Cellular localization was depicted using CELLO (http://cello.life.nctu.edu.tw/). […]

library_books

Highly Promiscuous Oxidases Discovered in the Bovine Rumen Microbiome

2018
Front Microbiol
PMCID: 5945886
PMID: 29780372
DOI: 10.3389/fmicb.2018.00861

[…] analysis against the Laccase and multicopper oxidase engineering database (LccED) (e-value < 10-8, identity ≥ 20%, and query length coverage ≥ 20%) (). The protein signatures were detected using the InterProScan web service ().Contig taxonomic assignment was carried out using MEGAN v5.10.6 (), based on BLASTX analysis against the non-redundant NCBI database (min. score = 35, min. support = 1). Co […]

Citations

Looking to check out a full list of citations?

InterProScan institution(s)
European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton and Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, UK
InterProScan funding source(s)
Supported by Biotechnology and Biological Sciences Research Council (Bioinformatics and Biological Resources Fund) (BB/ F010508/1); European Union (under the program ‘FP7 capacities: Scientific Data Repositories’) (213037).

InterProScan reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review InterProScan