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Other Initatives Matrix - caBIG

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Other Initatives Matrix - caBIG Powered By Docstoc
					                                                                                                                                                                                               Type of
 Assigned to          Initiative                 Website             Contact                                Purpose                           Funding Source           Participants             Data                                            Proprietary Issues                                                                                                              Regulatory Issues                                                     Other/ Comments
                                                                                                                                                                                                                                                                  Materials                                                                                                                                                       Harmonized
                                                                                                                                                                                                             Software Data/Tissue                                 Transfer/                                                                                                                    HIPAA                       IRB     HIPAA/ IRB
                                                                                                                                                                                                             Licensing  Access    Data Sharing                     Biospec                   Publication          Automated           Unique Patient                 HIPAA                    Consent         IRB        Consent  Notice/Conse
                                                                                                                                                                                                              Model? Principles? Agreement?                      Agreement?                   Policy?              de-ident?           Identifiers?               Implications?                Form?     Implications? Form Used?   nt Form?
        NIH

                                                                                Develop P2P Web-enabled search
                                                                                and retrieval of specimens; extract
                                                                                information from path reports. Based
                                                                                on CDEs from CPCTR search arhi                                                                                                                                                                                                                                                                                                                                   IRB model consent--
                                                                                ves of path reports. Has had to go                                                                                                                                                                                                                    Info de-                                                                                                   sharon winters will place
                                                                                through a meaty set of IRB and                                                                                                                                                                                                                        identified;                                                                                                in archive--mult orgs
                                                                                regulatory hurdles. Good news:                                                                                                                                                                                                                        individuals have                                                                                           sharing all this--local and
                                                                                Each instituttions are very individual;                                                                                                                                                                                                               codebooks                                                                                                  multiple
                  Shared Pathology                                              many different compliance                                                                                                                                                                                                                             (honest brokers                                                                                            developed software to de-
                  Informativs                                                   requirements. We can share how                                                     Pittsburgh; Harvard-                                                                                                                                               left to individual                                                              Development                identify clinical data from
Mike Becich       Network (SPIN)                     ??         David Bercowicz they approached these hurdles.                                        NCI          UCLA;                                                                                                                                         Y                    participants)          Y                                           Y            in progress                pathology reports

                                                                                                                                                                                                                                                                                                                                                                                                                                                 Discussed with Pat
                                                                                                                                                                                                                                                                                                                                                                                                                                                 Harsche. As far as tissue
                                                                                                                                                                                                                                                                                                                                                                                                                                                 sharing. Not much has
                                                                                                                                                                                                                                                                                                                                                                                                                                                 gone on to date.
                  Pennsylvania                                                                                                               New funding from                                                                                                                                                                                                                                                                                    review sample
                  Cancer Alliance                                                                                                            state of PA. Study                                                                                                                                                                                                                                                                                  agreements developed for
                  Bioinformatics                                                                                                                F6aggregating                                                                                                                                                                                                                                                                                    protection of human
                  Consortium          http:/www.pcabc.upmc.                                                                                   tissue for public.                                                                                                                                                                                                                                                                                 subjects/ privacy and IP
Jack London       (PCABC)             edu                   Nancy Whalen                                                                             F81                                                                                                                                                                                                                                                                                         rightsI

                                                                                                                                                                                                                                                                                                                                                                                                                      Institution's
                                                                                                                                                                                                                                                                                                                                                                                                                      IRB:
                                                                                                                                                                                                                                                                                                                                                                                                                      Developed
                                                                                                                                                                                                                                                                                                                                                                                                                      common IRB
                                                                                                                                                                                                                                                                                                                                                                                                                      protocol.
                                                          Dan Crichton,                  Develop a knowledge system that                                                                                                                                                                                                                                                                                              Several
Bob Robbins/      Early Detection                         NASA/JPL;                      links together EDRN data assets into                                                                                                                                                                                                                                                                                         months to
Wendy             Research        http://www3.cancer.gov/ Michael                        a virtual data system; common                                                                                                                                                                                                                                                                                                get through
Patterson         Network (EDRN) prevention/cbrg/edrn/    Kamerick, UCSF                 informatics structure                                        NCI           FHCRC JPL, NCI                                                                                     Y                                                                                                                                 Y            the process

                                                                         will pilot key aspects of NBN
                                                                         concept; will support development of
                  Prostate SPORE                                         common biospecimen coordination
                  National                                               system and informatics infrastructure                                                     11 institutions;
                  Biospecimen                                            for current prostate cancer research                                                      Harvard, MSKCC
John              Network (NBN)  http://prostatenbnpilot.n Paul Fearn,   collaborative projects at participating                                                   and Johns Hopkins                                                                                                                                                                                                                                                             Blueprint from NDOC;
Speakman          Pilot          ci.nih.gov/default.asp    John Speakman SPOREs                                                                       NCI          have lead roles                                                                                     Y                                         Y                                           Y                           Y               Y            Y                          Pilot begun 1.2004




                                                                                         The goals of the NCI restructuring with the
                                                                (Jeffrey Shilling -      creation of the Center for Cancer Research
                                                                >Tracy Thompson          are:
                                                                (Chief, Off                 (1) to foster interdisciplinary research,
                                                                Communication) ->           (2) to facilitate translational research,
                                                                Eric Hale -> Karen          (3) to expedite technology development,
                                                                Maurey (Chief, Tech         (4) to enhance training, particularly in                                                          Confidentialit
                                                                Transfer 301 435         interdisciplinary and translational research, and                                                          y&                                                                                                                                                                                                                Forms may be
                                                                3115) - Interviewed 9-      (5) to build partnerships between NCI and                                                           Disclosure                Confidentiality &                                                                                                                                                                           provided at a
                                                                9-05)                    other NIH Institutes, Federal agencies,                                                                  forms :                    Disclosure          Confidentiality &      Confidentiality &                        no formal policy     no formal policy                                                                later date by Ms.
                  NCI Center for                                (Wendy Patterson ->      academia, biotechnology companies and the                                                            http://ttb.nci.n                  forms :        Disclosure forms : Disclosure forms :                             obtained ; occurs    obtained ; occurs at                               federal - not                Karen Maurey,
                  Cancer Research                               Mark Watson ->           pharmaceutical industry.                                                                             ih.gov/forms. occurs at NIH http://ttb.nci.nih.g http://ttb.nci.nih.gov/ http://ttb.nci.nih.gov no formal policy   at individual        individual investigator federal - not covered by   covered by                   acting Chief,              Thank you to Ms. Karen Maurey
Tristan Fiedler   (CCR)               http://ccr.nci.nih.gov/   Greg Eley at BAH)           http://ccr.cancer.gov/about/message.asp                   NCI                                           html       level        ov/forms.html            forms.html             /forms.html       was obtained       investigator level   level                   HIPAA                      HIPAA                        Tech Transfer              for the valuable information.
                  Biomedical                                                             Establish cyberinfrastructure for                                                                                                                                                                                                                                                                                                                       Mark on travel 8/24; he'll
                  Informatics                                                            virtual data grid; shared network and                                                                                                                                                                                                                                                                                                                   be in Bar Harbor next
                  Research                                                               distributed database environment for                                                                                                                                                                                                                                                                                                                    week. We can do this
Carol Bult        Network (BIRN)      www.nbirn.net            Mark Ellisman             >20 institutions                                           NCRR                   UCSD                                                                                                                                                                                                                                                                  face to face.
                                                               Steve Moldin,
                                                               Ass. Dir, NIMH
                  NIMH Human                                   (administrator
John              Genetics                                     for NIMH-GI
Speakman          Initiative          http://nimhgenetics.org/ samples)                                                                              NIMH


                                                                                                                                                                                                                                                                      http://www.hhmi.org
                                                                                                                                                                                                  HHMI is                                                             /pdf/investigator-
                                                                                                                                                                                                  involved                                                            guide.pdf
                                                                                          The Institute is a nonprofit medical research                                                       primarily with                                                          http://www.hhmi.org
                                                                                         organization that employs hundreds of leading                                                        1) supporting                                                           /pdf/gc100.pdf                                                                                                                                                             Itelectual property statement
                                                                                         biomedical scientists working at the forefront of                                                    investigators                                                           (transfer to non-                                                                                                                                                          http://www.hhmi.org/pdf/Intellectual
                                                                Sharon Brickhill         their fields. In addition, through its grants                                                          with a wide                                      http://www.hhmi.org/ profit)                                                                                                                                                                    Property.pdf                     List
                                                                Assistant to General     program and other activities, HHMI is helping to                                                         range of                                       pdf/investigator-    http://www.hhmi.org                                                                                                                                                        of general councel at HHMI
                                                                Councel                  enhance science education at all levels and                                                             research                                        guide.pdf            /pdf/gc200.pdf                                                                                                                                                             institutions:
                  HHMI Howard Hughs                             brickhil@hhmi.org        maintain the vigor of biomedical science                                      Approximately 300       interests, 2)                                     http://www.hhmi.org/ (transfer to for-                                                                                                                                                          http://www.hhmi.org/about/ogc/host
Terry             Medical Institute   www.hhmi.org              301 215 8835             worldwide.                                          HHMI                   investigators across US      education No                No                  pdf/Sharing.pdf      profit)             No                     No                   No                     No                          No              No           No                  No     .html


                                                                                         The Open Science Grid is a US grid computing
                                                                                         infrastructure that supports scientific computing
                                                                                         via an open collaboration of science
                                                                                         researchers, software developers and
                                                                                         computing, storage and network providers.
                  Open Science Grid   www.Opensciencegrig.                               Teragrid (described under "Other") may be           NSF and Dept. of
Terry             (OSG)               org                  Kim Johnson                   more interesting/significant.                       Engergy                        Many                No data      No              N/A                 No                    N/A                   No                  N/A                  N/A                    N/A                         N/A             N/A          N/A                 N/A
                  Informatics for
                  Integrating
                  Biology and the     http://www.i2b2.org/abo Zak Kohane,                                                                                          Harvard, Brigham
Carol Bult        Bedside             ut/index.html           Director                                                                                             Women's
                                                                                                                                                                                                                                                                                                                                                                                                                                                 manual of operations
                  CPCTR (Prostate www.prostatetissues.or                                                                                                                                                                                                                                                                                                                                                                                         available; de-identified
Mike Becich       Cancer)         g                                                                                                                                                                                                                                                                                                                                                                                                              database available
                                                                                 New effort with Geisebger/Ardais.
                                                                                 Same strucutre for CPABC. Now
                                                                                 woith commerival health. Just been
                                                                                 funded. Who will be preparing those             Funded by small
                                                                                 agreements? Linberg research                    start-up and state
                                                                                 institute. UPMC Will be helping them            of PA. Can we
                                                                                 through the materials. Geis will                collect tissue
                                                                                 source. Ardais will collect and                 specimens of high
                                                                                 annotate. Linberger checking quality            quality from                                                                                                                     Partner
              Subcontract of                                                     of specimens. Ardais will be using              community health                                                                                                                 commercial with
Mike/J London PCABC                                        Nancy Barker          their form.                                     network?                                                                                                                         hospital
              NCI Cooperative
Identified by Group Specimen
Mark Watson Banks
              CHTN -
              Cooperative
Identified by Human Tissue
Mark Watson Network                                        Bill Grizzle
Identified by CBCTR-
Mark Watson; Cooperative
Mike Becich   Breast Cancer
will research Tissue Resource                              Sheila Palbi



                                                                                                                                                                                           Clinical
                                                                                                                                                                                        phenotypic
                                                                                                                                                                                            data
                                                                                                                                                                                                                                                                                              Yes --
                                                                               The Autism Genetic Resource Exchange                                           Anyone can apply,         (specific to
                                                                               (AGRE) was created by Cure Autism Now                                      applications reviewd by 2    autism), and                                                                                           collection of
                                                                               (CAN) to advance genetic research in autism                                  (of 4) investigators on    blood (which          Research                                                                         samples
                                                                               spectrum disorders. Genetic biomaterials and                               board. 1) Must meet IRB      is made into          Access                             Citation                                      handled by IRB
                                                                               clinical data are obtained from families that have                          guidelines at institution   cells lines for       application:                       guidelines:                                   of UCLA, and
                                                                               more than one family member diagnosed with an                               making request, and 2)           DNA
                                                                                                                                                                                                             http://www.agr     http://www.agr http://www.a                                   Western
                                                           Vlad Kustanovich,   Autism Spectrum Disorder. The biological                                       must sign materials       extraction).
              Autism Genetic                               Ph.D. vlad@agre.org samples, along with the accompanying clinical                                     transfer form.          Genotype            e.org/applicatio   e.org/applicati gre.org/prog                                  Institutional
              Resource Exchange                            323 931 6577 X31    data, are made available to AGRE-approved          Cure Autism Now        http://www.agre.org/bnews/     data on 356          n/researcherap     on/AGREagre ram/howTo                                         Review Board Received         affiliated with NIMH
Terry         (AGRE)              www.agre.org             Research Liaison    researchers.                                       (CAN)/ Rutgers Univ.       bibcite.cfm?do=news          families.    N/A   p.cfm              ement.pdf       Cite.cfm     No   Yes               No   No   www.wirb.com from Vlad   No   Genetics Initiative
                                                                                                                                                                                       slides
                                                                                                                                                                                       and
                                                                                                                                                                                       summarie
                                                                                                                                                                                       s of
                                                           Dr. Anthony                                                                                                                 Zerhouni
                                                           Hayward                                                                                                                     presentati
                                                           Director,                                                                                                                   on and
                                                           Division for  Major administrative initiative that will                                                                     parallel
              Roadmap                                      Clinical      track NIH awards etc; RFA not                                                                                 sessions
              Initiative on                                Research      released yet, may come in January.                                                                            from 23
              Clinical and                                 Resources, andThe process once developed will                                                                               May 05
              Translational                                              consolidate resources will make the
                                                           Dr. Robert Star,                                                                                                            meeting;
              Sciences -                                                 adoption of "gold stadards" (such as
                                                           National Center                                                                                                             posted
              Enhancing the                                for Research  for caBIG) easier. One section of the                                                                         pointers
              Discipline of       http://www.ncrr.nih.gov/ Resources     project will address bioinformatics,                    NIH, National                                         to related                                                                                                                           Well worth tracking but not
              Clinical and        clinicaldiscipline.asp   National      clinical, and translational sciences.                   Center for                                            efforts                                                                                                                              likely to be a primary
Howard        Trans lational      www.nihroadmap.nih.g Institutes of     Will result in greater discipline in                    Research                                              outside of                                                                                                                           source. Howard will
Bilofsky      Sciences            ov                       Health        these fields.                                           Resources               na                            NIH.                  na                                                                          na                                 monitor.
                                                                         Make resources for scientists already
                                                                         funded by NIGMS. 5 grants. Multi-
                                                                         institutional monsters. Different
                                                                         aspects of basic biology and
                                                                         medicine. Pub policy, data
              NIGMS "Glue                                                validation. Infrasstructure on
              Grants" - Large                                            computational side. Info mgmt, de-
              Scale               http://www.nigms.nih.g                 id, databses. Alliance for cell
              Collaborative       ov/                     Sean           signaling. Dumps everything
Ivan Rusyn    Projects            funding/gluegrants.html Karsokromanian immediately.                                            NIGMS
      UK

                                                                                                                                                                                                                                                                                                                            working closely with caBIG
                                                                                                                                                                                                                                                                                                                            -- See NCRI Strategic
                                                                                                                                                                                                                                                                                                                            Framework document and
                                                       Richard Begent,                                                                                                                                                                                                                                                      draft data sharing policy
                               http://www.cancerinfor Sue Dubman;                                                                                                                                                                                                                                                           http://www.cancerinformati
              NCRI Informatics matics.org.uk/index.htm Fiona           Access clinical trials data from all UK                                                                                                                                                                                                              cs.org.uk/documents.htm#
Amin Chisti   Initiative       l                       Reddington      NCRN trials                             UK NCRI                                                                                                                                                                                                      Taskforce

                                                                                 Provides services to faciliate
                                                                                 integration of data and applications to
                                                                                 support investigator-driven
                                                                                 experiments in silico; An e-Science
                                                                                 pilot project. More software and                                        Academic
                                                                                 architecture focussed. Looked into                                      consortium; nine
                                                                                 Web site. Version from 99. More                                         industry partners
                                                                                 useful for software subcommittee.       UK; some industry               (GSK and IBM most
Amin Chisti   myGrid project      www.mygrid.org.uk                              "European Public License"               support (IBM).                  significant)
                                                                                 They're gathering data on health and
                                                                                 lifestyle of half a million voilunteers
                                                                                 between 40 and 69. Lawyers and
                                  http://www.ukbiobank.a                         directors. Set up as a charitable
Amin Chisti   UK Biobank          c.uk/                                          organziation                            UK
  EUROPE
                                                                                                                                                                                                                                                 The database will       See                    They have held                                                                                                                                              Re. Material Transfer
                                                                                                                                                                               EORTC                                                             be published in the     http://www2.eur.nl/f   so far half-year                                                                                                                                            Agreement: We have developed
                                                                                                                                                                               (http://www.eortc.be/)OEIC                                        restricted public       gg/pathol/index.htm    annual                                                                                                                                                      a standard Tissue Transfer
                                                                                                                                                                               (http://www.oeci-                                                 domain, but must        From the web           meetings,                                                                                                                                                   Agreement (At the end of
                                                                                                                                                                               eeig.org/web_oeci/default.                                        be freely               page:                  discussing all                                                                                                                                              deliverable 6.1)
                                                                                                                                                                               asp) and others (see                                              accessible for the      Tissue samples         workpackages                              Yes. Every tissue                                                                                                 as well a Code of Conduct
                                                                                                                                                                               http://www.eortc.be/vtb/vtb                                       European scientific     can be selected        on their                                  collecting participant                                                                                            (Deliverable 7.2), making Tissue
                                                                                                                                                                               website/TuBaFrostFrame                                            community via the       and requested for      developments                              in the project is                                                                                                 Transfers possible between two
                                                                                                                                                                               Set.asp).                                                         web. The website        scientific medical     and working out                           responsible for the                                                                                               countries in Europe. The CoC is
                                                                                                                                                                                                                                                 will be developed to    research only if the   the future plans                          way the samples are                                                                                               based on the home country
                                                                                                                                                                               The storage of tissue                                             publish and explain     following conditions   and                                       coded. The central                                                                                                control principle. One of the main
                                                                                                                                                                                                                                                 the use of the          are met:               deliverables. In                          database only gets                                                                                                interests of the whole project was
                                                                                                                                                                               will be de-centralized,
                                                                                                                                                                                                                                                 virtual tumor bank.     1. You must be         addition the        Only anonymous        the codes and has in                                                                                              to find ways to when the project
                                                                                                                                                                               at the institute where it
                                                                                                                                                                                                                                                 To enable working       employed as a          developed items     but linked tissue     no way access to                                                                                                  is finished attract existing local
                                                                                                                                                                               is collected. To assure
                                                                                                                                                                                                                                                 with the tissue and     researcher by the      are evaluated.      can be                actual patient data.                                                                                              tissue banks to join the network,
                                                                                                                                                                               equal quality of tissue,
                                                                                                                                                                                                                                                 thereby crossing        Erasmus MC.            This results in     exchanged. The        The tissue collector is                                                                                           which can have very valuable
                                                                                                                                                                               which in outcome of
                                                                                                                                                                                                                                                 European borders,       2. You must be         extensive           tissue samples        responsible for the                                                                                               collections. That resulted in a rule,
                                                                                                                                                                               scientific experiments can
                                                                                                                                                                                                                                                 a code of conduct       familiar with the      minutes.            are linked to the     proper coding of the                                                                                               which is also very practical to the
                                                                                                                                                                               be compared,
                                                                                                                                                                                                                                                 will be developed by    Code Proper            Furthermore all     following             sample. Systems can                                                                                               whole organisation: The tissue,
                                                                                                                                                                               standardization of the
                                                                                                                                                                                                                                                 expert health-jurists   Secondary Use of       deliverables are    identifying           be very simple like a                                                                                             that stays stored at the institute of
                                                                                                                                                                               collection and storage
                                                                                                                                                                                                                                                 for research with       Human Tissue           shared with all     information only:     database with                                                                                                     the collector until it is
                                                                                                                                                                               methods is fundamental.
                                                                                                                                                                                                                                                 "left over" human       developed by the       participants.       sex, age, country,    automatic sample                                                                                                  requested for experimental use,
                                                                                                                                                                               Therefore, protocols for
                                                                                          The objective of the TuBaFrost project is to                                                                                                           tissues that            FMWV.                  They are at the     initial diagnosis.    numbering or the                                                                                                  also stays under the
                                                                                                                                                                               storage, retrieval and
                                                                    Dr. W.N.M. Dinjens    create an innovating virtual (networked)                                                                                                               complies with the       3. You must be         moment              In addition,          position of the tissue                                                                                            custodianship of the collector.
                                                                                                                                                                               tracking of tissues will
                                                                    (E-mail:              European human frozen tumor tissue bank for                                                                                                            various legal and       able to give an        preparing a         histologic images     in the storage system                                                                                             This way the collector does not
                                                                                                                                                                               be standardised and
                                                                    w.dinjens@erasmus     the whole scientific community composed of                                                                                                             ethical regulations     exact description      series of           are available on-     provides numbers                                                                                                  give away the
                                                                    mc.nl)                high quality frozen tumor tissue sample                                              implemented in all                                                in Europe.              of all planned         articles in         line hence the        that can be linked                                                                                                tissue samples to a large
                                                                    Dr. P.H.J. Riegman    collections with a corresponding accurate                                            participating                                                     Incentives for          experiments            external            name "Virtual         back in the local                                                                                                 organisation dictating what to do
                                                                    (E-mail:              diagnosis stored in major European cancer                                            laboratories.                                    See for rules    collecting frozen       involving the tissue   International       Tumour Bank."         database to the                                    See FMWV                                                       with it, but the collector can decide
                                                                    p.riegman@erasmus     centres and universities, searchable through an                                                                                       and regulations tissue samples,          samples.               magazines and       Also see FMWV         patient data. The                                  “Code Proper                                                   for himself to join or reject
                                                                    mc.nl)                uncomplicated query system on the Internet,            Not NCI. Funded by            Centralised access will                          re. secondary    access rules and        4. The planned         have been very      “Code Proper          Tissue resource                                    Secondary Use                                                  requests
                                                                    Mrs. Karin de Wildt   which is provided with rules for access and use        European commission           be provided to the de-                           use of tissue    use of the tissues      experiments need       involved in         Secondary Use of      manager is the                                     of Human Tissue"                                               or even use the tissue for its own
                                                                    (E-mail:              of the tissues complete with a European code of        until November. From          centrally stored material                        samples:         will be established     to be of sufficient    disseminating       Human Tissue" at      keeper of the key.                                 at                                                             purposes (Only the central
                                   www.eortc.be/vtb (?)             k.dewildt@erasmusm    conduct to comply with the various legal and           that moment on they           via a central database                           http://www.fmwv. in dialogue with the    quality to spend the   our developed       http://www.fmwv.nl/   When issuing tissue it                             http://www.fmwv.nl                                             database must be updated). This
                                   Changed to                       c.nl)                 ethical regulations in European countries.             must have finished the        containing                                       nl/gedragscodes participating            valuable tissue        knowledge and       gedragscodes/go       will be done under        Will need to compare     /gedragscodes/go                                               way even project driven highly
                                   http://www.eortc.be/vtb/vtbweb Mrs. Monique Oomen                                                             infrastructure and open       representative                                   /goedgebruik/Co institutes to ensure     samples on, which      views in many       edgebruik/CodePr      these code numbers,       FMWV “Code Proper        edgebruik/CodePr                                               valuable collections can join.
                                   site/TuBaFrost2.asp AND          (E-mail:              The database will be published in the restricted       shop. They are looking        histologic images and     Human                  deProperSecon smooth operation           is to be decided by    International and   operSecondaryUs       together with the         Secondary Use of         operSecondaryU               European tissue European tissue   These collections obviously have
               EORTC Virtual       http://www2.eur.nl/fgg/pathol/in m.oomen@erasmus       public domain, but must be freely accessible for       for sponsors to fill in the   coded-linked patient      tissue                 daryUseOfHum of the bank.                the Tissue Bank        European            eOfHumanTissue.       clinical data required    Human Tissue" with       seOfHumanTissu               bank so I'm not bank so I'm not   a higher threshold for issuing
Laura          Tumour Bank         dex.htm                          mc.nl)                the European scientific community via the web.         next two years.               data.                     samples.         N/A   anTissue.pdf                             committee.             meetings.           pdf                   for the experiments.      HIPAA for differences.   e.pdf              Unsure.   sure.           sure.             tissue and in addition have
   OTHER
                                                                                          Reflects approaches to human
                                                                  Director: Myron         subjects in social sciences at U
                                   www.icpsr.umich.edu            Gutmann                 Michigan                                                                                                                                                1. All centers         1. the PSI             1. The RFA
                                                                                                                                                                                                                                                  must share the         "pilot" phase is       has strict
                                                                                                                                                                                                                                                  information            now complete;          requirement
                                                                                                                                                                                                                                                  regarding              during the pilot       s for data
                                                                                                                                                                                                                                                  which proteins         phase,                 release, as
                                                                                                                                                                                                                                                  are being              materials (e.g.        outlined in
                                                                                                                                                                                                                                                  considered,            clones) were           the URLs in
                                                                                                                                                                                                                                                  cloned,                available to           #9 below
                                                                                                                                                                                                                                                  crystallized,          independent            2. Each
                                                                                                                                                                                                                                                  etc. to                researchers            center
                                                                                                                                                                                                                                                  TargetDB               and distributed        involved in
                                                                                                                                                                                                                                                  2. Each large          by each PSI            the PSI has
                                                                                                                                                                                                                                                  scale center           center working         a website for
                                                                                                                                                                                                                                                  has several            on that protein        public
                                                                                          See:                                                                                                                                                    subcontracts to        2. the next            distribution
                                   http://grants.nih.gov/gra                              http://www.nigms.nih.gov/Initiatives/P                                                                                                                  universities,          phase of PSI           of
                                   nts/guide/rfa-files/RFA-                               SI/                                                                                                                                                     government             will have a            information;
                                   GM-05-001.html                                         http://www.the-                                                                                                                                         laboratories,          centralized            websites are
                NIGMS Protein      http://grants.nih.gov/gra                              scientist.com/2005/10/24/30/1                                                                                                                           synchrotrons           materials              not
                Structure          nts/guide/rfa-files/RFA- Dr. John Norvell,             http://www.nigms.nih.gov/News/Repo                                                                                                                      etc.. Data             repository for         regulated
Tristan Fiedler Initiative         GM-05-002.html            director                     rts/protein_structure.htm                                                                                                                               distribution           expression             3. All

                                                                                                                                                                                Indiana University and
                                                                                                                                                                                  Purdue University,
                                                                                                                                                                                  National Center for
                                                                                          TeraGrid is an open scientific discovery                                                 Supercomputing
                                                                                          infrastructure combining leadership class                                            Applications, Oak Ridge
                                                                                          resources at eight partner sites to create an                                        National Laboratory, San
                                                                                          integrated, persistent computational resource.                                        Diego Supercomputer
                                                                                          Deployment of TeraGrid was completed in                                                 Center, Pittsburgh
                                                                                          September 2004, bringing over 40 teraflops of                                        Supercomputing Center,
                                                                                          computing power and nearly 2 petabytes of                                                Texas Advanced
                                                                                          rotating storage, and specialized data analysis                                         Computing Center,
                                                                                          and visualization resources into production,                                          University of Chicago        No data --
                                                                  help@teragrid.org       interconnected at 10-30 gigabits/second via a                                            Argonne National          computing
Terry          TeraGrid            www.teragrid.org               866 336 2357            dedicated national network.                            NSF                                  Laboratory             resources



               Eli Lilly
               Standards for
               Data Sharing
               under the Human
Mike B.        Proteome Project
                                                                                          • The mzData standard, which captures peaklist
                                                                                          data. mzData's aim is to unite the large number
                                                                                          of current formats (pkl's, dta's, mgf's, .....) into                                   Insilicos Life Science
                                                                                                                                                                                  Software (mzData-
                                                                                          one; mzData. mzData has been released in a                                              compatible viewer --
                                                                                          stable production version. mzData is already                                                 screenshot)
                                                                                                                                                                                SIB: Aldente (support in
                                                                                          supported by some software providers. Other
                                                                                                                                                                                    the next release)
                                                                                          companies, including Bruker Daltonics, Kratos                                        Bruker Daltonics (in next
                                                                                          Analytical    (Shimadzu    Group)     and     Matrix                                            release)
                                                                                                                                                                                Kratos (in next release)
                                                                                          Science, are currently implementing the mzData                                       Thermo Electron (in next
                                                                                          standard.                                                                                       release)
                                                                                                                                                                                Waters Corporation (in
                                                                                          •   The     mzIdent   standard,   which     captures
                                                                                                                                                                                      next release)
                                                                                          parameters and results of search engines such                                        Agilient, ABI (exploratory
                                                                                          as Mascot and Sequest (in addition to many                                                       phase)
                                                                                                                                                                                         Protagen
                                                                                          other equivalent tools).                                                              EBI/University of Gent:      Annotated
                                                                                          • The supporting ontology that will provide                                             Pride - PRoteomics         XML
                                                                                                                                                                               IDentificasions database      Schema
                                                                                          classifiers for both mzData and mzIdent; this list
               HUPO                                                                                                                                                             Bioinformatics Solutions     for
                                                                                          of clearly defined, contextualised terms is                                                   Inc.: Peaks
               Proteomics                                                                                                                                                                                    mzData
                                                                                          crucial for the construction of unambiguously                                         The OpenMS Project, a
               Standards                                                                                                                                                         software platform for       v1.05:
               Initiative mzData   http://psidev.sourceforg                               worded data files.                                                                      Shotgun Proteomics         mzdata.xs
Mike Becich    Standard            e.net/                                                                                                                                                                    d
                                                             • The mzData standard, which captures peaklist
                                                             data. mzData's aim is to unite the large number
                                                             of current formats (pkl's, dta's, mgf's, .....) into     Insilicos Life Science
                                                                                                                       Software (mzData-
                                                             one; mzData. mzData has been released in a                compatible viewer --
                                                             stable production version. mzData is already                   screenshot)
                                                                                                                     SIB: Aldente (support in
                                                             supported by some software providers. Other
                                                                                                                         the next release)
                                                             companies, including Bruker Daltonics, Kratos          Bruker Daltonics (in next
                                                             Analytical    (Shimadzu    Group)     and     Matrix              release)
                                                                                                                     Kratos (in next release)
                                                             Science, are currently implementing the mzData         Thermo Electron (in next
                                                             standard.                                                         release)
                                                                                                                     Waters Corporation (in
                                                             •   The     mzIdent   standard,   which     captures
                                                                                                                           next release)
                                                             parameters and results of search engines such          Agilient, ABI (exploratory
                                                             as Mascot and Sequest (in addition to many                         phase)
                                                                                                                              Protagen
                                                             other equivalent tools).                                EBI/University of Gent:     Annotated
                                                             • The supporting ontology that will provide               Pride - PRoteomics        XML
                                                                                                                    IDentificasions database     Schema
                                                             classifiers for both mzData and mzIdent; this list
              HUPO                                                                                                   Bioinformatics Solutions    for
                                                             of clearly defined, contextualised terms is                     Inc.: Peaks
              Proteomics                                                                                                                         mzData
                                                             crucial for the construction of unambiguously           The OpenMS Project, a
              Standards                                                                                               software platform for      v1.05:
              Initiative mzData   http://psidev.sourceforg   worded data files.                                        Shotgun Proteomics        mzdata.xs
Mike Becich   Standard            e.net/ms/index.html                                                                                            d

				
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