Activities
2012
Subcommittee members have been involved in several initiatives to develop databases and software tools for the exploitation of Arabidopsis proteomics data:
- Alex Jones is the new MASCP co-chair replacing the outgoing co-chair Wolfram Weckwerth.
- Organized the proteomics workshop at ICAR 2012
- Created the 1001 Proteomes portal to enable visualization of coding changes (nsSNPs) to Arabidopsis proteins
- Created a draft document attempting to briefly summarize minimum requirements for publication of proteomics data for plant journals. We are currently examining the viability of distributing such a document.
- Included the Arabidopsis Gelmap database as a track in the MASCP Gator. The database provides a visual interface proteins identified by gel based proteomics.
- Added the P3DB database as a new track to the MASCP Gator. this included published phosphorylation data as well as cross species orthology phosphopeptide matches to identify conserved sites in Arabidopsis
- New iMOP website up and running iMOP
- Presented at MASC Subcommittees workshop at ICAR 2011 in Madison, Wisconsin, USA
- Invited Stefanie Wienkoop (University of Vienna, Austria) to join the MASCP subcommittee
- updated the MASCP goals outlining the subcommittees accomplishments since its formation.
- Rolland Norbert (CEA, France) and Steve Briggs (University of California, San Diego) join MASCP
- MASCP Gator, the Arabidopsis proteomics aggregation portal, accepted for publication by Plant Physiology
- Added Fulbright fellowship opportunities (USA)
- Arabidopsis Proteomics Aggregator (MASCP Gator) is complete. Check out the utility here.
- Initiated formal interactions with HUPO regarding the involvement of MASCP with the formal development of proteomic standards in model organisms. Such a proposal will attempt to standardize efforts and make optimum use of the proteomics data for improved mining and cross species comparisons.
- Workshop held at ICAR 2010 attracted about 100 participants. An interesting discussions concerning data storage and making proteomics information available to the wider community followed the presentations by MASCP members.
- Proteomics workshop at ICAR 2010 (Yokohama, Japan) on Monday 7th June at 12:45. All Welcome.
- Appointment of Katja Baerenfaller Federal Institute of Technology, Switzerland to the subcommittee.
- Added information for Fellowship opportunities for Germany and Australia.
- Appointment of Nicolas Taylor from the University of Western Australia to the subcommittee.
- Arabidopsis Proteomics Aggregator (MASCP Gator) close to completion. Will provide a portal allowing basic protein information (mostly derived from proteomic studies) to be displayed for a given AGI.
- Commenced the coordinated development of an Arabidopsis proteomics aggregator portal amongst MASCP members (more news soon) - 2009
- Ported existing html based MASCP website to MediaWiki layout enabling members to edit content - 2009
- Held inaugural MASCP dinner for members (Edinburgh , 2009)
- Appointment of Waltraud Schulze from the Max Planck Institute of Molecular Plant Physiology to the subcommittee - 2009
- Proteomics workshop held at ICAR2009 in Edinburgh, UK
- Proteomics workshop held at ICAR2008 in Montreal, Canada
Subcommittee members have been involved in several initiatives to develop databases and software tools for the exploitation of Arabidopsis proteomics data:
- A database for the subcellular location of Arabidopsis proteins (SUBA). The database houses large scale proteomic and GFP localisation sets from cellular compartments of Arabidopsis.
- A repository of searchable MS/MS spectra as a protein/peptide-reference library for the Arabidopsis thaliana proteome integrating different levels of molecular organization including metabolites, pathways, and transcript expression (ProMEX).
- Tools for the protein database-independent identification of MS/MS spectra in order to allow improving genome annotation with proteomics data (Qualscore).
