Web Desc
Omics Strategies to Study the Proteome
Organizer(s): Alan Saghatelian, Chuan He and Ileana M. Cristea
Date: January 29 - February 02, 2017
Location: Beaver Run Resort, Breckenridge, CO, USA
Supported by the Directors' Fund
Summary of Meeting:
Proteins are responsible for controlling the majority of the processes necessary for life, and their translation and regulation are of fundamental and biomedical interest. A variety of different -omics strategies, including innovative sequencing and proteomics approaches, have provided fundamental insights into the composition and regulation of the proteome. This Keystone Symposia meeting will bring diverse group of scientists together to discuss topics ranging from the molecular biology of protein translation to the characterization of enzymes in cell and tissue systems through the development and application of genomics and proteomics methods. Key topics of emphasis include transcriptome and epitranscriptome regulation of translation, proteogenomics and the discovery of novel proteins, quantitative proteomics, protein interactions, and activity-based proteomics.
Scholarship Deadline: September 28 2016
Discounted Abstract Deadline: September 28 2016
Abstract Deadline: October 27 2016
Discounted Registration Deadline: November 29 2016
We gratefully acknowledge additional in-kind support for this conference from those foregoing speaker expense reimbursements:

Genentech, Inc.
We appreciate the organizations that provide Keystone Symposia with additional support, such as marketing and advertising:

Click here to view more of these organizations
Special thanks to the following for their support of Keystone Symposia initiatives to increase participation at this meeting by scientists from underrepresented backgrounds:

Click here to view more of these organizations

Program

Sunday, January 29 | 4:00PM - 8:00PM
Arrival and Registration
Room: Foyer


Sunday, January 29 | 6:00PM - 8:00PM
Welcome Mixer
Room: Foyer
No registration fees are used to fund alcohol served at this function.

Monday, January 30 | 7:00AM - 8:00AM
Breakfast
Room: Summit Gallery


Monday, January 30 | 8:00AM - 9:00AM
Welcome and Keynote Address (Organizers)
Room: Peaks 4-5

Speaker 1 of 1
Jonathan S. Weissman, Whitehead Institute and MIT, USA
Ribosome Profiling

Monday, January 30 | 9:00AM - 11:15AM
Global RNA and Protein Regulation and Dynamics
Room: Peaks 4-5

Speaker 1 of 6
* Chuan He, University of Chicago, USA

Monday, January 30 | 9:00AM - 11:15AM
Global RNA and Protein Regulation and Dynamics
Room: Peaks 4-5

Speaker 2 of 6
Xiang-Dong Fu, University of California, San Diego, USA
Novel Mechanism for microRNAs to Target Protein Coding Sequences to Regulate Translation

Monday, January 30 | 9:00AM - 11:15AM
Global RNA and Protein Regulation and Dynamics
Room: Peaks 4-5


Coffee Break

Monday, January 30 | 9:00AM - 11:15AM
Global RNA and Protein Regulation and Dynamics
Room: Peaks 4-5

Speaker 4 of 6
Frank L. Conlon, University of North Carolina at Chapel Hill, USA
Initiating Events in Direct Cardiomyocyte Reprogramming

Monday, January 30 | 9:00AM - 11:15AM
Global RNA and Protein Regulation and Dynamics
Room: Peaks 4-5

Speaker 5 of 6
Zijun Zhang, University of California, Los Angeles, USA
Short Talk: CLIP-Seq Analysis of Multi-Mapped Reads Identifies Novel Functional RNA Regulatory Sites in the Human Transcriptome

Monday, January 30 | 9:00AM - 11:15AM
Global RNA and Protein Regulation and Dynamics
Room: Peaks 4-5

Speaker 6 of 6
Manuel D. Leonetti, CZ Biohub, USA
Short Talk: A Scalable, Cloning-Free Strategy for Endogenous Protein Tagging: Construction of A Genome-Wide Collection of GFP-Tagged Human Cell Lines

Monday, January 30 | 11:15AM - 5:00PM
On Own for Lunch


Monday, January 30 | 11:15AM - 1:00PM
Poster Setup
Room: Peaks 1-3


Monday, January 30 | 1:00PM - 10:00PM
Poster Viewing
Room: Peaks 1-3


Monday, January 30 | 2:30PM - 4:30PM
Workshop 1: Protein-Protein Interaction
Room: Peaks 4-5

Speaker 1 of 7
* Steven P. Gygi, Harvard Medical School, USA

Monday, January 30 | 2:30PM - 4:30PM
Workshop 1: Protein-Protein Interaction
Room: Peaks 4-5

Speaker 2 of 7
Simeon Andrews, Weill Cornell Medicine - Qatar, USA
AVA-Seq: Rapid All-vs-All Proteome Interactions Probed with Next-Generation Sequencing

Monday, January 30 | 2:30PM - 4:30PM
Workshop 1: Protein-Protein Interaction
Room: Peaks 4-5

Speaker 3 of 7
Tom Casimir Bamberger, The Scripps Research Institute, USA
In vivo, Proteome-Wide Assessment of Protein Surface Accessibility as a Measure of Protein Structure and Interaction

Monday, January 30 | 2:30PM - 4:30PM
Workshop 1: Protein-Protein Interaction
Room: Peaks 4-5

Speaker 4 of 7
Kevin Drew, University of Texas at Austin, USA
Human Protein Complex Map: Integration of 10k Mass Spectrometry Experiments

Monday, January 30 | 2:30PM - 4:30PM
Workshop 1: Protein-Protein Interaction
Room: Peaks 4-5

Speaker 5 of 7
Ruth Huttenhain, University of California, San Francisco, USA
A Proximity Labeling Approach to Capture Temporal and Spatially Resolved Protein Interaction Networks in Living Cells

Monday, January 30 | 2:30PM - 4:30PM
Workshop 1: Protein-Protein Interaction
Room: Peaks 4-5

Speaker 6 of 7
Edward L. Huttlin, Harvard Medical School, USA
BioPlex: A Global Map of the Human Interactome

Monday, January 30 | 2:30PM - 4:30PM
Workshop 1: Protein-Protein Interaction
Room: Peaks 4-5

Speaker 7 of 7
Julian Mintseris, Harvard Medical School, USA
High-Density Chemical Cross-Linking for Modeling Protein Interactions

Monday, January 30 | 4:30PM - 5:00PM
Coffee Available
Room: Foyer


Monday, January 30 | 5:00PM - 7:00PM
Regulation and Functions of RNAs
Room: Peaks 4-5

Speaker 1 of 5
* Jonathan S. Weissman, Whitehead Institute and MIT, USA

Monday, January 30 | 5:00PM - 7:00PM
Regulation and Functions of RNAs
Room: Peaks 4-5

Speaker 2 of 5
Chuan He, University of Chicago, USA
RNA Methylation in Gene Expression regulation

Monday, January 30 | 5:00PM - 7:00PM
Regulation and Functions of RNAs
Room: Peaks 4-5

Speaker 3 of 5
Christine Mayr, Memorial Sloan Kettering Cancer Center, USA
3'UTR-Mediated Protein-Protein Interactions Regulate Protein Functions

Monday, January 30 | 5:00PM - 7:00PM
Regulation and Functions of RNAs
Room: Peaks 4-5

Speaker 4 of 5
Tao Pan, University of Chicago, USA
Functional Genomics of tRNA in Translation

Monday, January 30 | 5:00PM - 7:00PM
Regulation and Functions of RNAs
Room: Peaks 4-5

Speaker 5 of 5
Jagannath Swaminathan, University of Texas, Austin, USA
Short Talk: Single Molecule Peptide Sequencing

Monday, January 30 | 7:00PM - 8:00PM
Social Hour with Lite Bites
Room: Peaks 1-3
No registration fees are used to fund alcohol served at this function.

Monday, January 30 | 7:30PM - 10:00PM
Poster Session 1
Room: Peaks 1-3


Tuesday, January 31 | 7:00AM - 8:00AM
Breakfast
Room: Summit Gallery


Tuesday, January 31 | 8:00AM - 11:00AM
Omics Discovery of Novel Polypeptides
Room: Peaks 4-5

Speaker 1 of 7
* Alan Saghatelian, The Salk Institute for Biological Studies, USA

Tuesday, January 31 | 8:00AM - 11:00AM
Omics Discovery of Novel Polypeptides
Room: Peaks 4-5

Speaker 2 of 7
Pinchas Cohen, University of Southern California, USA
Mitochondrial ORFomics and Peptidomics

Tuesday, January 31 | 8:00AM - 11:00AM
Omics Discovery of Novel Polypeptides
Room: Peaks 4-5

Speaker 3 of 7
Alice Y. Ting, Stanford University, USA
Spatially-Resolved Proteomic and Transcriptomic Mapping in Living Cells

Tuesday, January 31 | 8:00AM - 11:00AM
Omics Discovery of Novel Polypeptides
Room: Peaks 4-5


Coffee Break

Tuesday, January 31 | 8:00AM - 11:00AM
Omics Discovery of Novel Polypeptides
Room: Peaks 4-5

Speaker 5 of 7
Kate Carroll, The Scripps Research Institute, USA
Cysteine-Mediated Redox Signaling: Chemical Tools for Biology Discovery

Tuesday, January 31 | 8:00AM - 11:00AM
Omics Discovery of Novel Polypeptides
Room: Peaks 4-5

Speaker 6 of 7
Yishai Levin, Weizmann Institute of Science, Israel
Short Talk: Database Independent Protein Sequencing (DiPS) Enables Full-Length De-Novo Protein and Antibody Sequence Determination

Tuesday, January 31 | 8:00AM - 11:00AM
Omics Discovery of Novel Polypeptides
Room: Peaks 4-5

Speaker 7 of 7
Jennie R. Lill, Genentech, Inc., USA
Short Talk: Defining the mutated Ligandome: Characterizing MHC Class I and Class II Peptides

Tuesday, January 31 | 11:00AM - 5:00PM
On Own for Lunch


Tuesday, January 31 | 11:00AM - 1:00PM
Poster Setup
Room: Peaks 1-3


Tuesday, January 31 | 1:00PM - 10:00PM
Poster Viewing
Room: Peaks 1-3


Tuesday, January 31 | 4:30PM - 5:00PM
Coffee Available
Room: Foyer


Tuesday, January 31 | 5:00PM - 7:15PM
Quantitative Proteomics and Informatics
Room: Peaks 4-5

Speaker 1 of 5
* Anne-Claude Gingras, Lunenfeld-Tanenbaum Research Institute, Canada

Tuesday, January 31 | 5:00PM - 7:15PM
Quantitative Proteomics and Informatics
Room: Peaks 4-5

Speaker 2 of 5
John R. Yates III, The Scripps Research Institute, USA
Protein-Protein Interactions Studies of Disease Networks

Tuesday, January 31 | 5:00PM - 7:15PM
Quantitative Proteomics and Informatics
Room: Peaks 4-5

Speaker 3 of 5
Olga Vitek, Northeastern University, USA
Statistical Methods for Quantitative Proteomics

Tuesday, January 31 | 5:00PM - 7:15PM
Quantitative Proteomics and Informatics
Room: Peaks 4-5

Speaker 4 of 5
Alexey I. Nesvizhskii, University of Michigan, USA
Computational Approaches for Proteomics

Tuesday, January 31 | 5:00PM - 7:15PM
Quantitative Proteomics and Informatics
Room: Peaks 4-5

Speaker 5 of 5
Olga G. Troyanskaya, Princeton University, USA
Tissue-Specific Protein Networks for the Study of Human Disease

Tuesday, January 31 | 7:15PM - 8:15PM
Social Hour with Lite Bites
Room: Peaks 1-3
No registration fees are used to fund alcohol served at this function.

Tuesday, January 31 | 7:30PM - 10:00PM
Poster Session 2
Room: Peaks 1-3


Wednesday, February 01 | 7:00AM - 8:00AM
Breakfast
Room: Summit Gallery


Wednesday, February 01 | 8:00AM - 11:15AM
Biological and Clinical Applications of Proteomics
Room: Peaks 4-5

Speaker 1 of 8
* Vicki H. Wysocki, Ohio State University, USA

Wednesday, February 01 | 8:00AM - 11:15AM
Biological and Clinical Applications of Proteomics
Room: Peaks 4-5

Speaker 2 of 8
Ileana M. Cristea, Princeton University, USA
Virology Meets Proteomics: The Human Organelle Proteome in Space and Time during Viral Infection

Wednesday, February 01 | 8:00AM - 11:15AM
Biological and Clinical Applications of Proteomics
Room: Peaks 4-5

Speaker 3 of 8
Michael Washburn, Stowers Institute for Medical Research, USA
Integrated Analyses of Epigenetic Complexes and Networks

Wednesday, February 01 | 8:00AM - 11:15AM
Biological and Clinical Applications of Proteomics
Room: Peaks 4-5


Coffee Break

Wednesday, February 01 | 8:00AM - 11:15AM
Biological and Clinical Applications of Proteomics
Room: Peaks 4-5

Speaker 5 of 8
David C. Muddiman, North Carolina State University, USA
Novel Discoveries in Ovarian Cancer and ALS: From Proteome Profiling to Proteoforms

Wednesday, February 01 | 8:00AM - 11:15AM
Biological and Clinical Applications of Proteomics
Room: Peaks 4-5

Speaker 6 of 8
Rosa Viner, Thermo Fisher Scientific Inc, USA
The Cellular Interactome by Proteome-Wide Cross-Linking Mass Spectrometry

Wednesday, February 01 | 8:00AM - 11:15AM
Biological and Clinical Applications of Proteomics
Room: Peaks 4-5

Speaker 7 of 8
Marie Anne Brunet, Université de Sherbrooke, Canada
Short Talk: Discovery of a Novel Peptide Encoded in an Alternative Open Reading Frame of FUS Gene and its Importance in ALS

Wednesday, February 01 | 8:00AM - 11:15AM
Biological and Clinical Applications of Proteomics
Room: Peaks 4-5

Speaker 8 of 8
Gary Wilson, University of Wisconsin-Madison, USA
Short Talk: Improved Plasma Proteomics Enables the Investigation into Alzheimer's Disease Progression

Wednesday, February 01 | 11:15AM - 5:00PM
On Own for Lunch


Wednesday, February 01 | 11:15AM - 1:00PM
Poster Setup
Room: Peaks 1-3


Wednesday, February 01 | 1:00PM - 10:00PM
Poster Viewing
Room: Peaks 1-3


Wednesday, February 01 | 2:30PM - 4:30PM
Workshop 2: Novel Omics Strategy
Room: Peaks 4-5

Speaker 1 of 6
* Alan Saghatelian, The Salk Institute for Biological Studies, USA

Wednesday, February 01 | 2:30PM - 4:30PM
Workshop 2: Novel Omics Strategy
Room: Peaks 4-5

Speaker 2 of 6
Christian H. Ahrens, Agroscope, Switzerland
A Generic, Integrative Proteogenomics Approach to Identify the Entire Protein Coding Potential of Prokaryotic Genomes

Wednesday, February 01 | 2:30PM - 4:30PM
Workshop 2: Novel Omics Strategy
Room: Peaks 4-5

Speaker 3 of 6
Christopher M. Rose, Genentech, Inc., USA
Real-Time Data Analysis Strategies for Targeted and Discovery Proteomics

Wednesday, February 01 | 2:30PM - 4:30PM
Workshop 2: Novel Omics Strategy
Room: Peaks 4-5

Speaker 4 of 6
Mark D. Biggin, Lawrence Berkeley National Laboratory, USA
Quantitating Translational Control: mRNA Abundance-Dependent and Independent Contributions

Wednesday, February 01 | 2:30PM - 4:30PM
Workshop 2: Novel Omics Strategy
Room: Peaks 4-5

Speaker 5 of 6
Brian K. Erickson, Harvard Medical School, USA
High-Throughput Targeted Proteomics: Combining Sample and Peptide Multiplexing for Drug Discovery and Biomarker Validation

Wednesday, February 01 | 2:30PM - 4:30PM
Workshop 2: Novel Omics Strategy
Room: Peaks 4-5

Speaker 6 of 6
Paul A. Grimsrud, Duke University Medical Center, USA
Lipids Reprogram Metabolism to Become a Major Carbon Source for Histone Acetylation

Wednesday, February 01 | 4:30PM - 5:00PM
Coffee Available
Room: Foyer


Wednesday, February 01 | 5:00PM - 7:00PM
Protein Interactions and Structure
Room: Peaks 4-5

Speaker 1 of 5
* Joshua J. Coon, University of Wisconsin, USA

Wednesday, February 01 | 5:00PM - 7:00PM
Protein Interactions and Structure
Room: Peaks 4-5

Speaker 2 of 5
Anne-Claude Gingras, Lunenfeld-Tanenbaum Research Institute, Canada
A Physical Map of a Human Cell

Wednesday, February 01 | 5:00PM - 7:00PM
Protein Interactions and Structure
Room: Peaks 4-5

Speaker 3 of 5
Thomas Kodadek, The Scripps Research Institute, USA
Surveying the Immunoproteome Using DNA-Encoded Combinatorial Libraries

Wednesday, February 01 | 5:00PM - 7:00PM
Protein Interactions and Structure
Room: Peaks 4-5

Speaker 4 of 5
Vicki H. Wysocki, Ohio State University, USA
Development of Native MS: Surface-Induced Dissociation as a Structural Biology Tool

Wednesday, February 01 | 5:00PM - 7:00PM
Protein Interactions and Structure
Room: Peaks 4-5

Speaker 5 of 5
Nadia Martinez-Martin, Genentech, Inc., USA
Short Talk: Decoding Extracellular Protein-Protein Interactions using Genome-Wide Libraries and Complementary Receptor Discovery Platforms

Wednesday, February 01 | 7:00PM - 8:00PM
Social Hour with Lite Bites
Room: Peaks 1-3
No registration fees are used to fund alcohol served at this function.

Wednesday, February 01 | 7:30PM - 10:00PM
Poster Session 3
Room: Peaks 1-3


Thursday, February 02 | 7:00AM - 8:00AM
Breakfast
Room: Summit Gallery


Thursday, February 02 | 8:00AM - 11:00AM
Functional Proteomics
Room: Peaks 4-5

Speaker 1 of 7
* Ileana M. Cristea, Princeton University, USA

Thursday, February 02 | 8:00AM - 11:00AM
Functional Proteomics
Room: Peaks 4-5

Speaker 2 of 7
Alan Saghatelian, The Salk Institute for Biological Studies, USA
Cell Biology of sORF Polypeptides

Thursday, February 02 | 8:00AM - 11:00AM
Functional Proteomics
Room: Peaks 4-5

Speaker 3 of 7
Steven P. Gygi, Harvard Medical School, USA
A Powerful Mouse Model Illuminates the Consequences of Genetic Variation on a Proteome-Wide Scale

Thursday, February 02 | 8:00AM - 11:00AM
Functional Proteomics
Room: Peaks 4-5


Coffee Break

Thursday, February 02 | 8:00AM - 11:00AM
Functional Proteomics
Room: Peaks 4-5

Speaker 5 of 7
Joshua J. Coon, University of Wisconsin, USA
One-Hour Proteome Analysis

Thursday, February 02 | 8:00AM - 11:00AM
Functional Proteomics
Room: Peaks 4-5

Speaker 6 of 7
Christopher G. Parker, The Scripps Research Institute, USA
Short Talk: Ligand and Target Discovery by Fragment-Based Screening in Human Cells

Thursday, February 02 | 8:00AM - 11:00AM
Functional Proteomics
Room: Peaks 4-5

Speaker 7 of 7
Elyse Freiberger, University of Wisconsin-Madison, USA
Short Talk: Deep Proteome Analysis of Murine Islets

Thursday, February 02 | 11:00AM - 5:00PM
On Own for Lunch


Thursday, February 02 | 4:30PM - 5:00PM
Coffee Available
Room: Foyer


Thursday, February 02 | 5:00PM - 6:15PM
Emerging Strategies in Proteomics
Room: Peaks 4-5

Speaker 1 of 3
* John R. Yates III, The Scripps Research Institute, USA

Thursday, February 02 | 5:00PM - 6:15PM
Emerging Strategies in Proteomics
Room: Peaks 4-5

Speaker 2 of 3
James A. Wells, University of California, San Francisco, USA
Discovering and Modulating How Cell Surfaces Remodel with RAS Transformation

Thursday, February 02 | 5:00PM - 6:15PM
Emerging Strategies in Proteomics
Room: Peaks 4-5

Speaker 3 of 3
Bernd Wollscheid, ETH Zürich, Switzerland
Decoding Ligand Receptor Interactions

Thursday, February 02 | 6:15PM - 7:00PM
Keynote Address
Room: Peaks 4-5

Speaker 1 of 2
* Alan Saghatelian, The Salk Institute for Biological Studies, USA

Thursday, February 02 | 6:15PM - 7:00PM
Keynote Address
Room: Peaks 4-5

Speaker 2 of 2
Brenda J. Andrews, University of Toronto, Canada
Yeast Proteome Dynamics and Subcellular Morphology from Single Cell Imaging and Automated Analysis

Thursday, February 02 | 7:00PM - 7:15PM
Meeting Wrap-Up: Outcomes and Future Directions (Organizers)
Room: Peaks 4-5


Thursday, February 02 | 7:15PM - 8:15PM
Social Hour with Lite Bites
Room: Peaks 1-3
No registration fees are used to fund alcohol served at this function.

Thursday, February 02 | 8:00PM - 11:00PM
Entertainment
Room: Peaks 1-3
Entertainment is not subsidized by conference registration fees nor any U.S. federal government grants. Funding for this expense is provided by other revenue sources.

Thursday, February 02 | 8:15PM - 11:00PM
Cash Bar
Room: Peaks 1-3


Friday, February 03 | 10:25AM - 10:25AM
Departure


*Session Chair.