HUPO PSI Fall Workshop 2006

September 25th-27th, Washington DC, USA

N.B. THIS MEETING OCCURRED IN THE PAST!

Contents

1. General Information
2. Meeting structure
3. Registration
4. Logistics
5. Sponsors

General Information

This page gives all information associated with the upcoming 2006 PSI Fall Meeting and provides a link to the registration form. The meeting is free to attend.

Meeting location [MAP]: American Chemical Society, Marvel Halls A-C, 1155 16th St. NW, Washington, DC 20036, USA.

Meeting dates: September 25th, 26th and 27th, 2006.

Mainstream PSI activities

Since its conception in April 2002, the HUPO Proteomics Standards Initiative has contributed to the development of community standards for proteomics in a collaborative and very dynamic way, resulting in several published reports. Following the initial release in 2004, the MI work group has now released version 2.5 of the PSI MI standard for molecular interactions, and the mzData 1.05 standard for mass spectra has been widely implemented by instrument vendors, tool providers and public databases.

At this meeting, the Proteomics Standards Initiative will further develop its core standards, and build on our newly established relationships with fields beyond proteomics. Additionally, after initially operating in a very informal manner, PSI is now coming of age; with an increasing participation, increasing investment into standards by both academic and commercial entities, and growing interest by scientists, funders, and journals, the PSI has begun the process of formalizing its operations. A major topic in the common session will be discussion of the recently introduced formal structure for PSI and its standardization process.

• Molecular Interactions (MI) Working Group:
  The PSI MI 2.5 standard for molecular interactions has been released; MI activities will focus on tool implementation and curation aspects. As a new activity, the MI workgroup will explore the use of the existing PSI MI schema to model interactions between protein binding agents, for example antibodies, and their targets. See below for a more detailed description.
   
• Mass Spectrometry (MS) and Proteomics Informatics (PI) Working Groups:
  The MS and PI groups will discuss a backwards-compatible, incremental update of the mzData standard, and expect to finalize the analysisXML standard for protein identifications.
   
• Protein Modifications (Mod) Working Group:
  The Mod group will finalize the proposed standard for the representation of protein modifications.
   
• Gel Electrophoresis/Informatics (Gel) Working Group:
  The Gel group will present the draft of the gel informatics MIAPE module and the Milestone 2 release of the GelML format.
   
• Sample Processing (SP) Working Group:
  The SP group will present the draft spML format and the beta column chromatography and draft capillary electrophoresis MIAPE modules.
   
• Additional topics will be added here as the final schedule is settled.

Specific topics at the meeting

The PSI Controlled Vocabulary:
The meeting will feature a session dedicated to issues around the growth, evolution and integration of the sets of controlled vocabulary (CV) terms generated by the various PSI WGs and the relationship between PSI CV development activity and the FuGO project.

The FuGE OM & ML:
PSI will continue to foster discussion of implementation issues for the FuGE model (now at Milestone 3), both in its native form and as a parent schema for PSI formats.

The Minimum Information Checklist Project:
The MICheck project was conceived during a series of discussions at the last PSI meeting in San Francisco. This meeting will provide a forum to discuss further developments within that project and the relationship between PSI, MICheck and other bodies producing reporting guidelines for various technologically- or biologically-delineated domains.

Proteome Binders — targeted molecular interactors:
Classic antibodies and other specific protein binders are key reagents in research diagnostics. Their importance is reflected in several current large-scale efforts for generation, charaterisation and validation of protein binders, in particular by the European FW6 "ProteomeBinders" project[1], the US National Cancer Institute[2], and the Swedish HPR project[3]. The interaction between a protein binding agent and its target is a specific form of molecular interaction, and the Molecular Interactions work group plans to extend the existing PSI MI standard for the representation of molecular interactions[4] towards the modeling of the interaction between proteins and protein binding agents. This work will be initiated at this meeting. All interested parties are welcome to participate.

Integrating design requirements from metabolomics:
PSI strongly encourages all with an interest in data exchange formats for metabolomics to attend this meeting, to contribute to the development of the mzData, AnalysisXML and spML formats, along with the supporting vocabularies. The benefits of such cross-domain input are many; interoperability (in support of systems biology) and design robustness being two excellent examples. It is likely that the Metabolomics Standards Initiative (MSI) will adopt the mzData and AnalysisXML formats for metabolomics mass spectrometry data and its analysis, enabling the re-use of existing code libraries by instrument vendors along with other tool and database providers; a productive collaboration is also underway between MSI and PSI to jointly advance the spML format. The vocabularies to support spML, mzData and AnalysisXML will similarly be advanced jointly. PSI therefore strongly encourages all with an interest in data exchange standards for metabolomics to attend this meeting, to promote their specific interests and to help us ensure that these formats properly serve both communities.

PSI organising committee:

Henning Hermjakob
Randy Julian
Chris Taylor

Local organizer:

Elizabeth Zubritsky (ACS)

Meeting structure (note that this is a draft and will change as the meeting approaches)

How to register

Any queries regarding registration should be directed to Chris Taylor.

Logistics

The meeting will be held at the headquarters of the
American Chemical Society, Marvel Halls A-C,
1155 16th St. NW, Washington, DC 20036, USA.

The Washington DC Metro rail network is an excellent way to get around. The nearest station to the venue is Farragut North, from where you should proceed east on L Street, then north on 16th Street [MAP].

Hotels:
Several hotels are close to the venue — a number are listed below. However, should these prove to be fully booked, or too expensive, our advice is to consult the Metro network map and pick something near to a station. Do check that you will not have to make too many changes en route...

The Braxton Hotel (cheap, but very limited availability...)
1440 Rhode Island Ave. NW
Washington, DC 20005
Phone: 1-800-350-5759

Marriott Courtyard Embassy Row
1600 Rhode Island Ave. NW
Washington, DC 20036
Phone: 1-202-293-8000

Wyndham Washington
1400 M St. NW
Washington, DC 20005
United States
Phone: 1-202-429-1700

Capital Hilton
1001 16th St. NW,
Washington, DC 20036
Tel: +1-202-393-1000

The Madison, A Loews Hotel
1177 15th St. NW
Washington, DC 20005
Phone: 202-862-1600

Sponsored (to date) by

American Chemical Society, EMBL-EBI.

Become a sponsor — follow this link for a description of the available packages!