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Highlights from C-HPP program at HUPO 2019 Congress, Adelaide, Australia, September 15 – 19, 2019

08 Oct 2019 10:58 AM | Anonymous

Chris Overall (Chair), Young-Ki Paik (Co-Chair), Lydie Lane (co-chair), Gilberto B. Domont (MAL), Fernando Corrales (MAL), Pengyuan Yang (MAL) and Péter Horvatovich (Secretary General).

The Annual HUPO Congress in 2019 in Adelaide, Australia had a rich C-HPP and HPP program and activities on the future directions of the (C-)HPP programs.

The HPP investigators day, September 16, 2019

The HPP investigators Program was held on Sunday, September 15, 2019. The program included a long introduction to “The Human Proteome Project” by Mark Baker, followed by updates and reports on C-HPP and JPR HPP special issue by the C-HPP Chair, Chris Overall, the B/D-HPP by Fernando Corrales, Knowledgebase Pillar by Eric Deutsch, Mass Spectrometry Pillar by Sue Weintraub, Antibody/Affinity Pillar by Jochen Schwenk and the fourth new Pathology Pillar by Dan Chen.

The program was followed by C-HPP and B/D-HPP Principal Investigator Council meetings in parallel sessions and then by the HPP Workshop on “Illuminating the dark proteome to understand human biology and disease”, where Eric Deutsch presented the HPP Data interpretation Guidelines version 3.0 and Lydie Lane provided an update on new neXtprot developments, such as the support of the PSI Extended Fasta Format (PEFF), which includes annotation of the protein sequences with PTMs and sequence variants using controlled vocabulary, changes on protein evidence levels, definition of protein function serving the basis of uPE1 definition and changes of the number of proteins with known and unknown functions in the current neXtprot release (Jan-2019) compared to the previous release in Jan-2018, integration of variant frequencies from gnomAD database and the future integration of I-TASSER/COFACTOR protein function predictor tools.

Paola Roncada provided a summary on the Food and Nutrition Proteomics highlighting importance of proteomics in allergen identification such as partially digested shrimp tropomyosin. The Human Kidney and Urine proteome initiative progress was presented by John Arthur, while Meggie Lam presented the PubMed literature analysis of the HPP completed with visualization using VOSviewer.

HPP Workshop Day, September 19, 2019

HPP Workshop day started with an intensive and animated discussion on the highlights of HUPO 2019 and current progress and future directions of the HPP by Jennifer van Eyk. Then the future directions of the HPP was highlighted by C-HPP EC by Chris Overall and Young-Ki Paik, B/D-HPP (Ileana Christea), the Pathology Pillar (Dan Chan), and Ab/Affinity Pillar, by the new Chair, Cecilia Lindskog. Discussion led to the presentation of current and future HPP Pillars plans and how to increase in general the visibility of proteomics in the scientific community.

Th eSPecial Invited C-HPP speaker, Seán O’Donoghue, presented an illuminating lecture on the “The dark proteome of structural biology”, where “dark” represent regions in proteins where there is no known or predicted structure based on every sequence with a structure in the PDB from all species, a brilliant tour de force in bioinformatics and data visualizations using the AQUARIA tool. Missing protein searches in rare tissues such as human bone was summarized by Chris Overall leading to uncomfortable conclusions concerning the likelihood of finding MPs in such tissues, while Fernando Corrales summarized popular and less popular proteins in disease.

Mike Snyder presented a multi-omics strategy of human health over several years of active monitoring and Lydie Lane the use of SPARQL to query multiple complex databases among others neXtProt allowing to gain more comprehensive information on life-science curated data as strategy for better HPP outreach.

C-HPP Poster Session

Three winners of the C-HPP Poster Awards each received a certificate and cheque of USD200 from John Wilson, Protifi at the closing ceremony. The awardees are, Chae-Yeon Kim (Yonsei University, Seoul, Korea), Chengxin Zhang (University of Michigan, Ann Arbor, MI, USA) and Yuanling Zhang, (Siqi Liu Lab, Beijing Institute of Genomics, China).

Bioinformatics Hub

Again, Eric Deutsch has mastered a wide ranging and practical program on bioinformatics challenges in MP hunting, data analysis and implementing the new Human Proteome Project Data Interpretation Guidelines (Version 3.0) in a friendly atmosphere that encourages Q & A and for attendees to come away truly knowing the answer to their questions. The program with some of presentations is available at http://bit.ly/hupohub2019.

The C-HPP Wiki

The C-HPP wiki was updated with slides of many presentations and a dedicated session of the Bioinformatics hub was provided on how to edit C-HPP Wiki, which is based on Tiki Wiki content management system (version 18.1). We ask input from the individual chromosome teams to fill the C-HPP Wiki with further content regarding resources, achievements, available ProteomeXchange datasets and any information, which is relevant for C-HPP participants and in general for the HPP community.

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