UNIVERSAL MAPS DOWNLOADER 9.32 PLUS
UNIVERSAL MAPS DOWNLOADER 9.32 ZIP

This public distribution includes data consolidated using the iRefIndex method for BIND, BioGRID, CORUM, DIP, IntAct, HPRD, MATRIXDB, MPACT, MPPI, MPIDB, MINT, REACTOME, VIRUSHOST, UNIPROTPP, HPIDB, MOLCON, BHF_UCL, MBINFO, QUICKGO, BAR, and HURI. Other formats and divisions are possible and we welcome your input on future releases. The data format and divisions provided in this initial release were chosen in the hopes that they would be immediately useful to the largest possible set of users. The file is a complete and non-redundant listing. The above data taxon division scheme leads to duplications for instance, an interaction present in the mouse index could also appear in the human index if the interaction record lists protein sequence records from both human and mouse. In some cases, this taxonomy identifier will be a child of the taxon listed in the file's title for example, Escherichia coli K12 (taxonomy identifier 83333) will appear in the Escherichia coli (taxonomy identifier 562) file.Ī description of the NCBI taxon identifiers is available at the following location: The taxonomy identifiers listed are derived from the source protein sequence record. Taxonomy identifiers are provided in the data sets allowing these exceptions to be identified. In some cases, other objects may belong to other taxons if a virus-host interaction is being represented or if a protein from another organism has been used to model a protein in the specified organism.

UNIVERSAL MAPS DOWNLOADER 9.32 ZIP

Each zip compressed file contains a single text file with the corresponding name. Taxon specific subsets of the data are named .zip where xxxx is the taxonomy identifier of at least one of the interactors according to either the source interaction database or the sequence database record. Taxon specific data sets are also available for: IRefIndex data is distributed as a set of tab-delimited text files with names of the form .zip where ddmmyyyy represents the file's creation date. Individual indices in PSI-MITAB2.6 format All of these resources have been integrated from freely available sources.This public distribution includes data consolidated using the iRefIndex method for BAR, BIND, BIND_TRANSLATION, BioGRID, CORUM, DIP, HPRD, HURI, IntAct, IntComplex, IPI, InnateDB, MATRIXDB, MBINFO, MMDB, MPACT, MINT, MPPI, MPIDB, REACTOME, VIRUSHOST, UNIPROTPP, HPIDB, BHF-UCL, MBINFO, and QUICKGO. Seeĭetails on the build process are available from the publication PMID 18823568.

UNIVERSAL MAPS DOWNLOADER 9.32 PLUS

The PSI-MI2.6 format plus additional columns is described below.Ī supplementary file lists just database:accession pairs for proteins and their mapping to irog, icrog and Entrez Gene identifiers. Assignment of source interaction records to these redundant groups is described at. Each index file follows the PSI-MITAB2.6 format with additional columns for annotating edges and nodes. 9.54 Column number: 54 (numParticipants)ĭirectory and the format of the tab-delimited text files contained within.9.40 Column number: 40 (FinalReferenceB).9.39 Column number: 39 (FinalReferenceA).

9.38 Column number: 38 (OriginalReferenceB).

9.37 Column number: 37 (OriginalReferenceA).

9.35 Column number: 35 (Checksum_Interaction).

9.30 Column number: 30 (parameters_Interaction).

9.29 Column number: 29 (Host_organism_taxid).

9.28 Column number: 28 (Annotations_Interaction).

9.25 Column number: 25 (xrefs_Interaction).

9.22 Column number: 22 (interactor_type_B).

9.21 Column number: 21 (interactor_type_A).

9.20 Column number: 20 (experimental_role_B).

9.19 Column number: 19 (experimental_role_A).

9.18 Column number: 18 (biological_role_B).

9.17 Column number: 17 (biological_role_A).

9.14 Column number: 14 (interactionIdentifier).

9.12 Column number: 12 (interactionType).

5.3 Keys for grouping together redundant interactors and interactions.

5.2.3 Intramolecular interactions and multimers.

5 Understanding the iRefIndex MITAB format.

4.1 Interactions involving small molecules are missing.

Universal Maps Downloader 9.32