Agenda: HUPO PSI spring meeting 2017, Beijing
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HUPO PSI spring meeting 2017, Beijing
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Monday 24 April 2017
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9:00Registration & Welcome, Introduction (Henning Hermjakob, EMBL-EBI, NCPSB)
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9:20Spectral libraries (Henry Lam, Hong Kong University of Science and Technology)
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9:55Proteomics in China and the challenge in proteomics bioinformatics (Jun Qin, Director of the Phoenix Center, Beijing China)
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10:30Activities overview: Molecular Interactions/IMEx (Sandra Orchard), Mass spectrometry (Eric Deutsch), Proteome informatics (Andy Jones), Quality Control (Dave Tabb), ProteomeXchange (Juan Antonio Vizcaino), Metabolomics Standards Initiative (Reza Salek)
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12:00Lunch at venue
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13:00Room 425: Track 1 - Molecular interactionsRoom A 423: 2/3/4/5 - Mass spectrometry / Proteome Informatics
(Deutsch / Vizcaino / Martens / Jones)
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Joint MS / PI / QC / session
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14:00XML3.0/JAMI Update (EBI)mzML, TraML, PEFF, mzIdentML, mzQuantML, mzTAB, controlled vocabulary, spectral library format, MIAPE, proBAM, proBED, PROXI, etc. Bringing qcML into the PSI
Crosslinking (XL)
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CausalTAB (Luana Licata)
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14:30Coffee Break
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15:00ComplexTAB and FeatureTAB (EBI)Joint MS / PI / QC session
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16:00End of Day 1
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16:20Social dinner: Quanjude Duck Restaurant (Bus departure 16:20 in front of building)
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Tuesday 25 April 2017
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9:00Track 1 - Molecular InteractionsTrack 2 - Mass spectrometryTrack 3 -Proteome Informatics/Metabolomics/Break-outsTrack 4 - Quality Control
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Improving our curation to-do lists and eliminating biases:

        - Establishment of regular reference stats to check coverage
and account for potential biases
PEFF in mainmzTab in A426
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9:30Computationally-driven interactome expansion: From orphans and legal
aliens to condition-specific interactions (Igor)
PEFFmzTabqcML / minimal requirements
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10:00
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10:30Further coordination and evaluation on dark space project. (Pablo)
Curating glycosaminoglycans - adapting the GlycoCT standard (Oliver)
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11:00mzML 1.2 in mainmzTab for metabolomics
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12:00Lunch at venue
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13:00Track 1 - Molecular InteractionsTrack 2 - Mass spectrometryTrack 3Track 4 - Quality Control
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Oncogenic Protein Interaction Network Rewiring (David)Metrics integration and CV crafting
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13:30Tools and accessibility

        - Quality control of what's exported in MITAB and PSI-MI XML 3.0.

        - Distributed evaluation of tools that can work with our
standards e.g. R packages and Cytoscape direct imports.
Special focus on interoperability of complex portal & interactions data.
Spectral library formatsmzTab for metabolomics
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14:00mzTab for metabolomicsSoftware support
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14:30Coffee break
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15:00Extending and x-referencing our data

        - Mapping genomic variation data to interactomes.

        - How can we make the fragment interaction information we have
more usable/useful?

        - Tissue-specific interactomes
Spec Lib FmtmzTab (after 4pm we will work on mzTab for proteomics)Implementation in repositories
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17:00End of Day 2
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18:00Dinner on your own, restaurant recommendation "Spicy fish" restaurant nearby
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Wednesday 26 April 2017
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9:00Track 1 - Molecular InteractionsTrack 2 - Mass spectrometryTrack 3Track 4 - Quality Control
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Publication PlansUniversal Spectrum Identifier
mzTab contMinimal reporting requirements
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9:30IMEx - a single combined dataset - funding applications, progress, plansUniversal Spectrum Identifier
proteomics part
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10:00IMEx websiteUniversal Spectrum Identifier
mzTab contBreak-outs based on interests
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10:30IMEx outreachProteomeXchange and PROXIBreak-outs based on interests
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11:00Curation rulesProteomeXchange and PROXI
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11:30Summary, wrap upProteomeXchange and PROXI
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12:00Lunch at venue
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13:00Summary, wrap upSummary, wrap upmzTab - DIASummary, wrap-up
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14:00Summary, wrap upSummary, wrap upSummary, wrap upSummary, wrap-up
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15:00Common Session
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15:30Further plans, HUPO congress 2017, 2018 workshop, Closing (Deutsch)
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16:00End of PSI meeting 2017
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17:00Metro, Guided tour of Nanluoguxiang, walk to Houhai Lakes, dinner on your own, taxi instructions for return provided.
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Thursday 27 April 2017
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8:00Excursion: Hiking the Great Wall (self paid, 450 RMB/person). See http://www.beijinghikers.com/hike-in-beijing/view/752/gubeikou-great-wall-loop-5/ for description.
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18:00Arrival back at Phoenix Center
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