Sources iRefIndex 18.0

Last edited: 2021-08-20

Applies to iRefIndex release: 18.0

Release date: -06-2021

Authors: Joris Dekimpe

Database: iRefIndex (http://irefindex.org)

Description: This file lists interaction and protein sequence related resources used for the current build of the iRefIndex. Statistics for the iRefIndex are available and include a breakdown of interactors and interactions from each data source.

• For statistics on the full dataset please refer to: https://irefindex.vib.be/wiki/index.php?title=Statistics_iRefIndex_16.0

Data source information

Source	Release date	Release URL	Download files	Version
ATHALIANA	2019-11-20	ftp://ftp.ensemblgenomes.org/pub/plants/release-46/tsv/arabidopsis_thaliana/	Arabidopsis_thaliana.TAIR*.uniprot.tsv.gz
BAR	2021-04-27	http://bar.utoronto.ca:9090/psicquic/webservices/current/search/query/*	bar_psicquic.txt
BHF_UCL	2021-04-22	http://www.ebi.ac.uk/Tools/webservices/psicquic/bhf-ucl/webservices/current/search/query/*?format=tab27	bhfucl_psicquic.txt
BIND	2021-04-19		20060525*.txt
BIND_TRANSLATION	2014-05-20	http://download.baderlab.org/BINDTranslation/release1_0/	BINDTranslation_v1_xml_AllSpecies.tar.gz
BIOGRID	2021-04-19	https://downloads.thebiogrid.org/Download/BioGRID/Release-Archive/BIOGRID-3.5.187/	BIOGRID-ALL-3.5.187.psi25.zip
CORUM	2020-02-28	http://mips.helmholtz-muenchen.de/corum/download/	allComplexes.xml.zip
DIG	2021-04-19		morbidmap14062010.txt
DIP	2021-04-29	https://imex.mbi.ucla.edu/xpsq-dip-all/service/rest/current/search/query/*?maxResults=104,965	dip_psicquic.txt
FLY	2021-04-07	http://www.uniprot.org/docs/	fly.txt	2021_02
GENE	2021-04-19	ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/	gene2refseq.gz gene_info.gz gene2go.gz gene_history.gz
GENPEPT	2021-02-17	ftp://ftp.ncbi.nih.gov/ncbi-asn1/protein_fasta/	gb*.fsa_aa.gz
HPIDB	2021-04-22	http://www.ebi.ac.uk/Tools/webservices/psicquic/hpidb/webservices/current/search/query/*?format=tab27	hpidb_psicquic.txt
HPRD	2021-04-20		HPRD_PSIMI_041310.tar.gz
HURI	2021-04-27	http://interactome-atlas.org/data/	HuRI.psi
IMEX	2021-04-22	http://www.ebi.ac.uk/Tools/webservices/psicquic/imex/webservices/current/search/query/*?format=tab27	imex_psicquic.txt
INNATEDB	2021-04-23	http://www.innatedb.com/download/interactions/	innatedb_psicquic.txt
INTACT	2021-03-12	ftp://ftp.ebi.ac.uk/pub/databases/intact/current/psi25/	pmidMIF25.zip
INTCOMPLEX	2021-03-12	ftp://ftp.ebi.ac.uk/pub/databases/intact/complex/current/psi25/	complexesMIF25.zip
MATRIXDB	2021-04-26	http://matrixdb.univ-lyon1.fr:8080/psicquic/webservices/current/search/query/*?format=tab27	matrixdb_psicquic.txt
MBINFO	2021-04-23	http://www.ebi.ac.uk/Tools/webservices/psicquic/mbinfo/webservices/current/search/query/*	mbinfo_psicquic.txt
MINT	2021-04-20	http://www.ebi.ac.uk/Tools/webservices/psicquic/mint/webservices/current/search/query/*?format=tab27	mint_psicquic.txt
MMDB	2014-05-29	ftp://ftp.ncbi.nih.gov/mmdb/pdbeast/	table
MPACT	2021-04-21		mpact-complete.psi25.xml.gz
MPIDB	2021-04-23	http://www.ebi.ac.uk/Tools/webservices/psicquic/mpidb/webservices/current/search/query/*?format=tab27	mpidb_psicquic.txt
MPPI	2021-04-19		mppi.gz
PDB	2021-04-10	ftp://ftp.ncbi.nih.gov/blast/db/FASTA/	pdbaa.gz
PSI_MI	2021-04-19	https://raw.githubusercontent.com//HUPO-PSI/psi-mi-CV/master/	psi-mi.obo
QUICKGO	2021-04-23	http://www.ebi.ac.uk/QuickGO/psicquic/webservices/current/search/query/*?format=tab27	quickgo_psicquic.txt
REACTOME	2021-04-19	http://www.ebi.ac.uk/Tools/webservices/psicquic/reactome/webservices/current/search/query/*?format=tab27	reactome_psicquic.txt
SPIKE	2021-04-19	http://spike.cs.tau.ac.il/psicquic-ws/webservices/current/search/query/*	spike_psicquic.txt
TAXONOMY	2021-04-19	ftp://ftp.ncbi.nih.gov/pub/taxonomy/	taxdump.tar.gz
UNIPROT	2021-04-07	ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/complete/	uniprot_sprot.dat.gz uniprot_trembl.dat.gz uniprot_sprot_varsplic.fasta.gz reldate.txt	2021_02
UNIPROTPP	2021-04-23	http://www.ebi.ac.uk/Tools/webservices/psicquic/uniprot/webservices/current/search/query/*?format=tab27	uniprotpp_psicquic.txt
VIRUSHOST	2021-04-21	http://virhostnet.prabi.fr:9090/psicquic/webservices/current/search/query/*	virushost_psicquic.txt
YEAST	2021-04-07	http://www.uniprot.org/docs/	yeast.txt	2021_02

All iRefIndex Pages

Follow this link for a listing of all iRefIndex related pages (archived and current).