Mission Statement
The HUPO Proteomics Standards Initiative (PSI) defines community standards for data representation in proteomics to facilitate data comparison, exchange and verification. The PSI was founded at the HUPO meeting in Washington, April 28-29, 2002 (see Science 296, 827).
News
- The 2012 PSI meeting will take place in the Skaggs School of Pharmacy, San Diego, California, USA, on March 12-14, 2012.
- The 2011 PSI meeting took place in the Advanced Training Center, EMBL, Heidelberg, Germany, on April 11-13, 2011.
- The mzQuantML developers meeting took place at EMBL-EBI, Cambridge, UK, August 31 September 1 2010.
- The 2010 HUPO-PSI spring meeting took place in Seoul, South Korea, March 28-30, 2010.
- To request new CV term/s to be added to the PSI-MS Controlled Vocabulary, please fill this form.
- To request new CV term/s to be added to the PSI-SEP Controlled Vocabulary, please fill this form.
- The Proteomics journal has created a Virtual Issue on Standardardisation in Proteomics.
- A PSI workshop took place during the HUPO initiatives day, September 26, 2009, part of the HUPO world congress 2009, in Toronto.
- The PSI Spring workshop took place Monday, April 27 to Wednesday, April 29, 2009, in Turku, Finland.
- It was preceded by the second HUPO Joint PSI/Publication Committee workshop, Sunday, April 26, 2009.
Work groups
The main organisational unit of the Proteomics Standards Initiative is the work group. Currently, there are the following work groups:
- Protein Separation (PS)
- Mass Spectrometry (MS)
- Molecular Interactions (MI)
- Protein Modifications (MOD)
- Proteomics Informatics (PI)
Inter-group activities
To ensure consistency between work group deleverables, the PSI also maintains the following inter-group activities:
Organisation
To know the roles and responsibilities inside the different PSI workgroups, please visit this link.
Project status
The following table summarises the status of the PSI activities:
| Working Group | Reporting Guidelines (MIAPE) | Data exchange format | Controlled vocabulary | ||||||
| Cross-WG projects | MIAPE Principles Document |
5
|
FuGE (version 1) |
5
|
OBI |
3
|
|||
| Study design and sample generation |
1
|
||||||||
| Statistical analysis of data |
0
|
||||||||
| Gel | Gel electrophoresis |
5
|
GelML (version 1) | 5 | sepCV |
4
|
|||
| Gel informatics |
5
|
GelInfoML |
2
|
||||||
| Sample Processing | Column chromatography |
5
|
spML (milestone 2) |
3
|
sepCV |
4
|
|||
| Capillary electrophoresis |
5
|
||||||||
| Sample Processing for a Phosphoproteomics Experiment |
2
|
||||||||
| Mass Spectrometry | Mass spectrometry (MIAPE-MS) |
5
|
mzData (v1.05) (deprecated) |
X
|
MS CV |
4
|
|||
|
mzML (v1.1) |
5
|
||||||||
| TraML (v0.9.5) | 3 | ||||||||
| Mass spectrometry informatics (MIAPE-MSI) |
5
|
mzIdentML (v1.1.0) |
4
|
||||||
| Mass spectrometry quantification (MIAPE-Quant) | 3 | mzQuantML (v1.0.0-rc) |
3
|
||||||
| Molecular Interactions | Molecular interactions |
5
|
MIF |
5
|
PSI-MI (v2.5) |
5
|
| Color key: |
(0) Nothing
|
(1) Drafting
|
(2) Alpha
|
(3) Beta
|
(4) Release
|
(5) Published
|
Acknowledgements
PSI activities have been/are supported by:
- The Human Proteome Organisation (HUPO).
- The European Science Foundation (ESF).
- The EBI Industry Programme.
- The HUPO Plasma Proteome Project.
- EU ProDaC grant (LSHG-CT-2006-036814).
- Sporsors of the PSI Meetings/Workshops: Agilent Technologies, American Chemical Society, Applied Biosystems, BBSRC, Bruker Daltonics, DKFZ, EBI Industry Program, Eli Lilly, GE Healthcare, Genebio, Genologics, I-HUPO, IPSoc, Novartis, Roche, Serono, Syngenta, Swiss Institute of Bioinformatics, Swiss Proteomics Society, Thermo Electron.
