Previous Goals (Pre-2012)
1. Work towards a central international database of MS/ MS spectra derived from Arabidopsis samples.
2. Establishment of a high density proteome map of Arabidopsis thaliana using different tissues and high throughput mass spectrometry as a basis for future systems biology approaches.
3. Discuss international network grant proposals for plant proteomics.
4. Develop standards for two-dimensional gel-electrophoresis, shotgun proteomics, and quantitative proteomics.
5. Write guidelines for minimum requirements for different types of proteomic studies and distribute these to plant journals (specifically: Plant Molecular Biology, Plant Physiology, The Plant Cell, and The Plant Journal) for their consideration of publication standards—issues include experimental method, data analysis and call of identifications.
7. Seek funding opportunities for the exchange of students and young researchers between different labs in order to develop a common training initiative.
- With the development and release of the MASCP Gator, a web portal that aggregates proteomics data from a variety of community based Arabidopsis proteomic resources, this goal has been accomplished. Will endeavor to integrate emerging databases and resources with the MASCP Gator as they become available.
2. Establishment of a high density proteome map of Arabidopsis thaliana using different tissues and high throughput mass spectrometry as a basis for future systems biology approaches.
- With the release in 2008 of large-scale Arabidopsis proteomics sets comprising multiple organ analysis (AtProteome and AtPeptide) and in conjunction with the proteo-genomic visualization tools and analysis, aspects of this objective have been completed. These data have also been made available at TAIR as tracks on the Arabidopsis genome browser. Some aspects of this work was recently updated with a new proteomic analysis of Arabidopsis organs and tissues and includes global protein quantitation by spectral counts (pep2pro).
3. Discuss international network grant proposals for plant proteomics.
- The European COST action FA 0603 Plant Proteomics initiated some networking between proteomics researchers within Europe.
4. Develop standards for two-dimensional gel-electrophoresis, shotgun proteomics, and quantitative proteomics.
- Created standards on the MASCP website for shotgun proteomics, data formats and publication guidelines. MASCP continues to support the Minimum Information About a Proteomics Experiment (MIAPE) program.
- MASCP recently joined the Human Proteome Organizations iMOP initiativeto represent Arabidopsis coordinate the development of proteomic standards in model systems.
5. Write guidelines for minimum requirements for different types of proteomic studies and distribute these to plant journals (specifically: Plant Molecular Biology, Plant Physiology, The Plant Cell, and The Plant Journal) for their consideration of publication standards—issues include experimental method, data analysis and call of identifications.
- in preparation. Proteomic Guidelines Draft
- MASCP encourages and has made recommendations for the storage of raw data from proteomics experiments (published or unpublished.
- We have initiated a proposal to formalize and develop a closer integration of Arabidopsis proteomics data storage through PRIDE and live visualization through the MASCP Gator.
7. Seek funding opportunities for the exchange of students and young researchers between different labs in order to develop a common training initiative.
- We have expanded the Funding section to include information on international fellowships that are available to early career researchers. Since 2004 we have actively sought to organize proteomics workshops at international meetings and conferences.
