Release Notes - iRefWeb - Wodak Lab
Version 2.3: 2010 September 08
- Bug fix for download of search results in MITAB format (results incorrectly filtered/matched).
Version 2.2: 2010 August 26
- Some filters changed from discrete steps (1,2,3, etc.) to
ranges (1 or more, 2 or more, etc.). Filters affected:
Number of Supporting PubMeds, Number of Database Records,
Number of Annotating Databases.
- Small warning added to the Detection Methods and Interaction Type
filters (click on the help icon beside the title).
Version 2.1: 2010 July 23
- Clarifcation notes added to stats page/tab.
- New search filters:
- whether or not the interaction was predicted or experimental
- the count of distinct source databases annotating the interaction
- the total number of source database records supporting the interaction
Version 2.0: 2010 July 13
- Using iRefIndex version 7.
- Improved search results: now in a table format with sortable columns.
- New search filters, now with slider controls for custom filter settings.
- Interactome downloads are no longer limited to 50,000 records or less.
- Search results can also be exported as a list of interaction ids for use in
OrthoNets.
- You can now upload a list of Entrez Gene IDs to search on instead of searching for just
one ID at a time.
- This release includes data from BINDTranslation.
This data is being treated as if it was a non-public database because it is from an early version.
Future versions of iRefIndex/iRefWeb will include BINDTranslation as public data.
Version 1.0: 2009 March
- iRefWeb 1.0 contains the first release of
the iRefIndex dataset (iRefIndex 6) in which an additional isoform-consolidation
step was introduced into the iRefIndex procedure. Starting from this release,
every interacting protein is mapped to the canonical splice isoform of the
corresponding gene whenever possible. This enables further consolidation and
more reliable comparison of the interaction data across the source databases
(see irefindex.uio.no/wiki/Canonicalization).
- iRefWeb 1.0 and
iRefIndex 6 were used in the preparation of two upcoming publications:
-
Turner et al. "iRefWeb: Interactive analysis of consolidated protein interaction
data and their supporting evidence", Database Journal, 2010 (in press) -- a
detailed description of the iRefWeb resource, its many interactive features and
several usage scenarios.
- Turinsky et al. "Literature curation of
protein interactions: measuring agreement across major public databases"
(manuscript under review) -- a comparative study of current literature-curation
practices that pertain to protein-interaction data.
- The original source-database
releases used in iRefWeb 1.0 / iRefIndex 6 are listed at
irefindex.uio.no/wiki/Sources_iRefIndex_6.0.