Mass Spectrometry in the Health and Life Sciences: Molecular and Cellular Proteomics

August 18–22, 2019
San Francisco

The symposium presents the most up-to-date forum to learn of the remarkable advances in cell and human biology revealed by ever more innovative and powerful mass spectrometric technologies.

Program speakers have pioneered these major contributions to both methodology development and the challenging problems currently faced in cell biology and medicine. Discussions of methodological advances will be juxtaposed with presentations from biological perspectives that describe the role they play in addressing challenging problems and opportunities in protein biology and proteomics. These themes focus attention on the articulation of urgent needs and unsolved problems, as well as on many major successes in deciphering global composition, dynamics and function in virtually all areas of biological research.

See abstracts for each session in the symposium's supplement to Molecular and Cellular Proteomics.

Program schedule

Sunday August 18
Monday August 19
Tuesday August 20
Wednesday August 21
Thursday August 22

Sunday agenda

8:30 AM - 4:30 PM

Minisymposium on data-independent analysis

Organizers: Robert Chalkley and Hannes Röst

Improving the robustness, throughput and comprehensiveness of quantitative proteomics
Mike MacCoss, University of Washington
Complex-centric proteome profiling by SEC-SWATH-MS
Isabell Bludau, ETH Zurich
Aligning label-based discovery and global DIA validation proteomics to explore bacterial virulence phenotypes
Stuart Cordwell, University of Sydney
Advanced algorithms to assess and improve quantitative suitability in large DIA datasets
Sebastian Vaca Jacome, Broad Institute of MIT and Harvard
Parallel accumulation — serial fragmentation combined with data-independent acquisition (diaPASEF)
Florian Meier, Max Planck Institute of Biochemistry
Mobi-DIK (Ion Mobility DIA Analysis Kit): Targeted analysis software for diaPASEF data improves proteome coverage
Hannes Röst, University of Toronto
Applications of DIA for PTM research and specific DIA workflows
Birgit Schilling, Buck Institute for Research on Aging
Peptide MS/MS prediction for DDA and DIA
Mathias Wilhelm, Technical University of Munich

Monday agenda

8:30 AM - 9:30 PM

Plenary session

Chair: A.L. Burlingame

The End of the End: High throughput discovery and analysis of degrons
Stephen Elledge, Harvard Medical School
9:30 AM - 12:30 PM

Morning session

Chair: Bernhard Kuster

Drug effects on protein stability and proteostasis
Marcus Bantscheff, GlaxoSmithKline
Development, use, application of novel TIMS-Tof system
Matthias Mann, Max Planck Institute of Biochemistry
Lysine-targeted covalent inhibitors and chemoproteomic probes
Jack Taunton, University of California, San Francisco
Mapping proteolysis at the surface of living cells
Amy Weeks, University of California, San Francisco
12:45 PM - 1:45 PM

Sponsored session by Thermo Fisher Scientific

Introducing a new paradigm for targeted protein quantitation and single cell proteomics
Aaron Gajadhar and Daniel Lopez-Ferrer, Thermo Fisher Scientific
2:00 PM - 4:00 PM

Afternoon session

Chair: Anne-Claude Gingras

Characterization and turnover of RNA-binding proteins: Novel insights into ribosome maintenance
Jeroen Krijgsveld, German Cancer Research Center
Deciphering gene expression regulation in health and disease using integrative omics approaches
Michiel Vermeulen, Radboud Institute for Molecular Life Sciences
Protein interaction networks controlling gene expression programs and beyond
Jeffrey A. Ranish, Institute for Systems Biology

Tuesday agenda

8:30 AM - 10:10 AM

Flash talks

Chair: Angus Lamond

Poster presenters will be invited to give 1 min. flash talks on their work.

10:30 AM - 12:30 PM

Morning session

Chair: Don Kirkpatrick

The growing molecular complexity of ribosome biology
Maria Barna, Stanford University
Deciphering cellular organization using protein thermal stability and solubility
Mikhail M. Savitski, European Molecular Biology Laboratory
A proteomics view of mTOR signaling in humans
Anne-Claude Gingras, Lunenfeld–Tanenbaum Research Institute
12:45 PM - 2:00 PM

Sponsored session by Bruker

Mobi-DIK enables deconvolution of multiplexed diaPASEF data for high protein coverage
Hannes Rӧst, University of Toronto
Moving proteomics to the clinic with the PASEF TIMS-TOF
Matthias Mann, Max Planck Institute of Biochemistry
2:30 PM - 4:30 PM

Afternoon session

Chair: Bernhard Kuster

New Ub profiling approaches and applications
Namrata Udeshi, Broad Institute of MIT and Harvard
Proteomic exploration of lysine acetylation signaling
Chuna Choudhary, University of Copenhagen
Characterization of complexes and organelles
Kathryn Lilley, University of Cambridge

Wednesday agenda

8:30 AM - 9:30 AM

Plenary session

Chair: Steven Carr

Proteogenomics-based diagnostics for cancer
Matthew Ellis, Baylor College of Medicine
9:30 AM - 11:10 AM

Morning session

Chair: Bernhard Kuster

Proteins to pathways: Functional insights from comprehensive proteomics and phosphoproteomics
Karin Rodland, Pacific Northwest National Laboratory
Non MS-based techniques for proteomic profiling of large human cohorts: Trust ... but verify
Robert Gerszten, Beth Israel Deaconess Medical Center
11:10 AM - 12:10 PM

Plenary session

Proteogenomic analyses of lung adenocarcinoma
Michael Gillette, Broad Institute of MIT and Harvard
1:20 PM - 3:20 PM

Afternoon session

Chair: Nicholas Hertz

The human iPS cell proteome in health and disease
Angus Lamond, University of Dundee
Modulating nerve growth through RNA-protein interactions
Jeff Twiss, University of South Carolina
Mapping axon initial segment structure and function by multiplexed proximity biotinylation
Brian Lim, Baylor College of Medicine

Thursday agenda

8:30 AM - 11:40 AM

Morning session

Chair: Steven Carr

Cancer proteomics — connecting genotype with molecular phenotype
Janne Lehtiö, Karolinska Institute
A link between gut infection, autoimmunity and Parkinson's disease
Michel Desjardins, University of Montreal
Identification of mechanisms of activity and resistance to thalidomide analogs with a targeted quantitative immuno-mass spectrometry assay
Adam Sperling, Dana–Farber Cancer Institute
Crosslinking mass spectrometry and single particle cryoEM describe the structure of a novel translocon in complex with the ribosome
Michael Trnka, University of California, San Francisco
1:40 PM - 3:40 PM

Afternoon session

Chair: Pierre Thibault

Systematic profiling of HLA class I immunopeptidome improves neoantigen binding prediction
Susan Klaeger, Broad Institute of MIT and Harvard
Ribo-seq predicted novel unannotated open reading frames contribute peptides to the MHC class I immunopeptidome
Tamara Ouspenskaia, Broad Institute of MIT and Harvard
The genomic dark matter is a major source of targetable tumor-specific antigens
Pierre Thibault, University of Montreal
3:40 PM - 5:00 PM

Plenary session

Molecular & Cellular Proteomics Lecture

Chair: Pierre Thibault

Proteogenomics and immunopeptidomics for the development of personalized cancer immunotherapy
Michal Bassani-Sternberg, Ludwig Cancer Center