Sources iRefIndex 18.0

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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.


Data source information

Source Release date Release URL Download files Version
BAR 2020-05-24 http://bar.utoronto.ca:9090/psicquic/webservices/current/search/query/* bar_psicquic.txt
BHF_UCL 2020-04-29 http://www.ebi.ac.uk/Tools/webservices/psicquic/bhf-ucl/webservices/current/search/query/*?format=tab27 bhfucl_psicquic.txt
BIND 2020-04-27 20060525*.txt
BIND_TRANSLATION 2014-05-20 http://download.baderlab.org/BINDTranslation/release1_0/ BINDTranslation_v1_xml_AllSpecies.tar.gz
BIOGRID 2020-04-24 https://downloads.thebiogrid.org/Download/BioGRID/Release-Archive/BIOGRID-3.5.184/ BIOGRID-ALL-3.5.184.psi25.zip
CORUM 2020-02-28 http://mips.helmholtz-muenchen.de/corum/download/ allComplexes.xml.zip
DIG 2020-04-23 morbidmap14062010.txt
DIP 2020-04-26 https://dip.doe-mbi.ucla.edu/dip/Download.cgi?SM=3 dip20170205.mif25
FLY 2020-02-26 http://www.uniprot.org/docs/ fly.txt 2020_01
GENE 2020-04-22 ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/ gene2refseq.gz gene_info.gz gene2go.gz gene_history.gz
GENPEPT 2020-04-21 ftp://ftp.ncbi.nih.gov/ncbi-asn1/protein_fasta/ gb*.fsa_aa.gz
HPIDB 2020-05-08 http://www.ebi.ac.uk/Tools/webservices/psicquic/hpidb/webservices/current/search/query/*?format=tab27 hpidb_psicquic.txt
HPRD 2020-04-23 HPRD_PSIMI_041310.tar.gz
HURI 2020-05-22 http://interactome-atlas.org/data/ HuRI.psi
INNATEDB 2018-07-05 http://www.innatedb.com/download/interactions/ innatedb_all.mitab.gz
INTACT 2020-04-02 ftp://ftp.ebi.ac.uk/pub/databases/intact/current/psi25/ pmidMIF25.zip
INTCOMPLEX 2020-04-02 ftp://ftp.ebi.ac.uk/pub/databases/intact/complex/current/psi25/ complexesMIF25.zip
IPI 2012-07-20 ftp://ftp.ebi.ac.uk/pub/databases/IPI/last_release/current/ *.fasta.gz
MATRIXDB 2020-05-22 http://matrixdb.univ-lyon1.fr/download/ matrixdb_FULL.tab
MBINFO 2020-04-29 http://www.ebi.ac.uk/Tools/webservices/psicquic/mbinfo/webservices/current/search/query/*?format=tab27 mbinfo_psicquic.txt
MINT 2020-04-24 http://mint.bio.uniroma2.it/mitab/ MINT_MiTab.txt
MMDB 2014-05-29 ftp://ftp.ncbi.nih.gov/mmdb/pdbeast/ table
MPACT 2020-04-29 mpact-complete.psi25.xml.gz
MPIDB 2020-04-29 mpidb_psicquic.txt
MPPI 2020-04-29 mppi.gz
PDB 2020-04-18 ftp://ftp.ncbi.nih.gov/blast/db/FASTA/ pdbaa.gz
PSI_MI 2020-05-22 https://raw.githubusercontent.com//HUPO-PSI/psi-mi-CV/master/ psi-mi.obo
QUICKGO 2020-04-24 http://www.ebi.ac.uk/QuickGO/psicquic/webservices/current/search/query/* quickgo_psicquic.txt
REACTOME 2020-04-29 http://www.ebi.ac.uk/Tools/webservices/psicquic/reactome/webservices/current/search/query/* reactome_psicquic.txt
REFSEQ 2020-03-06 ftp://ftp.ncbi.nih.gov/refseq/release//complete/ complete*.protein.gpff.gz
SPIKE 2020-05-22 http://spike.cs.tau.ac.il/psicquic-ws/webservices/current/search/query/* spike_psicquic.txt
TAXONOMY 2020-04-22 ftp://ftp.ncbi.nih.gov/pub/taxonomy/ taxdump.tar.gz
UNIPROT 2020-04-22 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 2020_02
UNIPROTPP 2020-04-29 http://www.ebi.ac.uk/Tools/webservices/psicquic/uniprot/webservices/current/search/query/*?format=tab27 uniprotpp_psicquic.txt
VIRUSHOST 2020-04-29 http://virhostnet.prabi.fr:9090/psicquic/webservices/current/search/query/* virushost_psicquic.txt
YEAST 2020-04-22 http://www.uniprot.org/docs/ yeast.txt 2020_02

All iRefIndex Pages

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