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EBIDatabasesProteinsIPI

IPI - International Protein Index - IPI Announcements

Mailing list


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Future developments


Proposed Development Announced Scheduled
Release MySQL dumps
We plan to provide release dumps of IPI data in a simplified relational database schema for each species, in the same way we provide other flat files dumps, in order to be loaded by users into their own MySQL server. 		April 2006 May 2006
Forthcoming file format changes
A few format changes will occur in the next IPI release due on the 22 of February 2006 to provide more information about the revision status of RefSeq entries:
  • Fasta format file: RefSeq entries listed after solitary "REFSEQ" database code.
    documentation / sample
  • UniProt format file: REFSEQ_NP and REFSEQ_XP database codes replaced by REFSEQ_STATUS where 'STATUS' represents the RefSeq entry revision status.
    documentation / sample
  • Protein xrefs file: separate columns for RefSeq NPs and XPs replaced by a single one for all RefSeq entries (subsequent columns shifted to the left). Entry status information available for each referenced RefSeq entry.
    documentation / sample
  • Gene xrefs format: Ensembl peptides moved from column 13 to 11. Single column for all RefSeq entries (subsequent columns shifted to the left). Entry status information available for each referenced RefSeq entry.
    documentation / sample
Other formats remain unchanged. 		February 2006 February 2006
RefSeq entry status to be used instead of XP and NP prefixes
We plan to use more information available from the different data sources used to build IPI, in order to improve IPI datasets. This may have consequences on IPI data set formats. 		January 2006 February/March 2006
IPI data sets for Cow (Bos taurus) to be produced December 2005 January 2006
Addition of Vega data in IPI Human, Mouse and Zebrafish
 August 2005 September 2005
IPI data sets for Chicken (Gallus gallus) to be produced April 2005 May 2005
Addition of cross-references to the Consensus CoDing Sequence (CCDS) project
March 2005 April 2005
Publication of IPI history files
IPI IDs are propagated between releases wherever possible. In some cases, IDs are lost (usually because the master entry is dead in the source database). From the next release, we will make IPI history files available to allow users to track deleted IPI IDs. 		February 2005 March 2005
Addition of cross-references to the Transcriptome database (trome)
February 2005 March 2005
Addition of H-Inv data in IPI Human
 January 2005 February 2005
LocusLink source database replaced by Entrez Gene
Entrez Gene is the successor database to LocusLink. For species covered by LocusLink, it will still be possible to access the data using the Entrez Gene identifiers (more information...). 		December 2004 January 2005
IPI data sets for Arabidopsis thaliana to be produced December 2004 January 2005

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