Proteomics Resources

Resource Link	ATHENA

Description	ATHENA is a data exploration tool that provides access to a collection of > 18,000 protein and > 25,000 transcript expression profiles across a set of 30 matching tissues from Arabidopsis thaliana (Col-0). Data represent intensity-based absolute quantifications (iBAQ) for the proteome and transcripts per kilobase million (TPM) for the transcriptome.
Maintained by	Technical University of Munich

Resource Link	Functional Analysis Tools for Post-Translational Modifications

Description	Database of post translational modifications (PTMS) for Arabidopsis proteins including quantitative phosphorylation data, ubiquitylation, glycosylation,acetylation and others.Search by proteins, modification and co PTM networks.
Maintained by	Ian Wallace, University of Nevada

Resource Link	IntAct

Description	IntAct provides a freely available, open source database system and analysis tools for molecular interaction data. All interactions are derived from literature curation or direct user submissions and are freely available.
Maintained by	EMBL-EBI

Resource Link	Plant Protein Phosphorylation DataBase (P3DB)

Description	The Plant Protein Phosphorylation DataBase (P3DB) contains several published proteomics datasets listing sites of protein phosphorylation and acetylation for Arabidopsis and other plant species.
Maintained by	Jay Thelen and Dong Xu

Resource Link	Pride/ProteomeXchange

Description	The PRIDE PRoteomics IDEntifications (PRIDE) database is a centralized, standards compliant, public data repository for proteomics data, including protein and peptide identifications, post-translational modifications and supporting spectral evidence.
Maintained by	EBI-EMBL

Resource Link	Proteomics DB

Description	Database and repository for quantitative mass spectrometry-based proteomics data and protein turnover data. Now includes data for Arabidopsis.
Maintained by	Prof. Dr. Bernhard Küster

Resource Link	Research Collaboratory for Structural Bioinformatics-Protein Data Bank (PDB)

Description	Database of protein and DNA 3-dimensional structures.Search, visualization and analysis tools for structural biology.
Maintained by	Rutgers and UCSD/SDSC

Resource Link	SUBA4

Description	SUBA is the central resource for Arabidopsis protein subcellular location data and provides a subcellular data query platform, protein sequence BLAST alignment, a high confidence subcellular locations reference standards and analytic tools.
Maintained by	Harvey Millar

Resource Link	The Arabidopsis Protein Phosphorylation Site Database (PhosPhAt)

Description	The Arabidopsis Protein Phosphorylation Site Database contains large scale proteomic based data from both published and unpublished sources. Data is provided as either a searchable list of identified peptides or ions with annotated phosphorylation site (where available) or as a protein summary page with AGI.
Maintained by	University of Hohenheim

Resource Link	Biological General Repository for Interaction Datasets (BioGRID)

Description	Data repository for curated protein and genetic interactions.
Maintained by	Tyers Lab

Resource Link	MassIVE

Description	Repository for proteomics data, with tools for searching, reanalyzing, and comparison.
Maintained by	Center for Computational Mass Spectrometry

Resource Link	Protein Modification Viewer

Description	Protein modification database, data repository and analysis tools.
Maintained by	VIB

Resource Link	Seed Proteome Database

Description	Datasets for seed dormancy and germination proteomes.
Maintained by	Institut Jean Pierre Bourgin