Program for the Previous Symposium

Symposium and Mini-Symposium Registration
Grand Ballroom Vestibule

3:00pm

Registration

Symposium and Mini-Symposium Registration
Grand Ballroom Vestibule

7:30am

Registration

Mini-Symposium on Protein Quantitation and Dynamics
Grand Ballroom

Chair: Simon Gaskell, University of Manchester, Manchester, United Kingdom

8:30am	MS.1	Quantitative Proteomics: An Overview Ruedi Aebersold, Institute for Molecular Systems Biology, ETH Zurich and Institute for Systems Biology, Seattle, WA, USA
9:30	MS.2	Profiling Protein Expression by Label-Free Quantitative Mass Spectrometry Pedro Cutillas, Bart’s Institute of Cancer, Queen Mary University of London, United Kingdom
10:10		Coffee break
10:50	MS.3	Profiling Unlabeled Peptide Ions: A Versatile Approach to Quantitative Proteomics and to Mapping of Post-Translational Modifications Pierre Thibault, Université de Montréal, Montréal, Canada
11:30	MS.4	Quantitative Approaches for Analysis of Regulatory Post-Translational Modifications Jeffrey Gorman, Queensland Institute of Medical Research, Royal Brisbane Hospital, Herston, Queensland, Australia
12:10pm		Lunch

Chair: John Stults, Genentech, South San Francisco, CA

1:40pm	MS.5	Quantification by Spectral Counting in Large Datasets Eric Deutsch, Institute for Systems Biology, Seattle, WA, USA
2:20	MS.6	Protein Abundance Ratios for Microbial Proteomes Murray Hackett, University of Washington, Seattle, WA, USA
3:00	MS.7	Quantitative Proteomics in the Context of Systems Biology Simon Gaskell, The University of Manchester, Manchester, United Kingdom
3:40	MS.8	Analysis of Protein Levels and Phosphorylation Stoichiometry from Complex Samples using the iTRAQ Reagent Jonathan Trinidad, University of California, San Francisco, CA, USA

Grand Ballroom Vestibule

4:00pm

Symposium Registration

Gold & Venetian Rooms

4:00pm

Symposium Poster Set-up

Pavilion Room

6:00pm

Opening Reception

Grand Ballroom Vestibule

7:15am

Registration

Symposium
Grand Ballroom

8:15am

Introduction

Chair: Ralph Bradshaw, University of California, San Francisco, CA

8:30am

1.1

Plenary Lecture Expression Proteomics at Last: The Determination of Proteome Wide Protein Abundance Changes by SILAC and High Resolution Mass Spectrometry Matthias Mann, Max-Planck Institute for Biochemistry, Martinsried, Germany

Chair: Jan van Oostrum, Novartis Institutes of BioMedical Research, Basel, Switzerland

9:30am	1.2	Statistical Analysis of Quantitative Proteomics Datasets via Normalized Spectral Abundance Factors Michael Washburn, Stowers Institute for Medical Research, Kansas City, MO, USA
10:10		Coffee break
10:30	1.3	Insight Into Cell Biology from Physical and Genetic Protein Interactions Gerard Cagney, Conway Institute, University College Dublin, Dublin, Ireland
11:10	1.4	Exploiting peptide identification databases for improved bioinformatics for proteomics Simon Hubbard, University of Manchester, Manchester, United Kingdom
11:50	1.5	Refining Peptide LC/MS Analysis for Qualitative and Quantitative Proteomics Clive Slaughter, St. Jude Children’s Research Hospital, Memphis, TN, USA
12:30pm		Lunch

Chair: John Stults, Genentech, South San Francisco, CA, USA

2:00pm	2.1	Deciphering the Dynamics of Proteasome Interacting Proteins Using Quantitative Mass Spectrometry Lan Huang, University of California, Irvine, CA, USA
2:40	2.2	The Proteome Biology of Proteasome Complexes: Molecular Organization, Function, and Regulation Peipei Ping, University of California, School of Medicine, Los Angeles, CA, USA
3:20	2.3	Identification of Newly Synthesized Proteins Using Bioorthogonal Noncanonical Amino Acid Tagging (BONCAT) Erin Schuman, Howard Hughes Medical Institute, California Institute of Technology, Pasadena, CA, USA

Symposium Poster Session A
Gold & Venetian Rooms

Co-Chairs: David Maltby and Frank Li, University of California, San Francisco, CA

4:00pm

Poster Session A

Symposium
Grand Ballroom

Chair: Simon Gaskell, University of Manchester, Manchester, United Kingdom

8:30am

3.1

Plenary Lecture Innovative Technology for the Study of Cell Signaling Donald Hunt, University of Virginia, Charlottesville, VA, USA

Chair: Steve Carr, Broad Institute of MIT and Harvard, Cambridge, MA, USA

9:30am	3.2	TiMAC - A New Phosphoproteomic Strategy for the Separation of Mono- From Multiply Phosphorylated Peptides Combined with Optimized Tandem MS Mass Spectrometric Analysis Martin Larsen, University of Southern Denmark, Odense, Denmark
10:10		Coffee break
10:30	3.3	Proteomic Study of a Steroid Signal Transduction Pathway in Plants Zhi-Yong Wang, Carnegie Institute, Stanford, CA, USA
11:10	3.4	Comprehensive Phosphoproteome Analyses of Leukemic Hematopoietic Stem Cells to Uncover the Molecular Basis of Self-Renewal Pierre Thibault, Université de Montréal, Montréal, Canada
11:50	3.5	New Technology to Detect and Monitor the Post-Translational Modification Events that Commit Human Embryonic Stem Cells to Exit the Pluripotent State Joshua Coon, University of Wisconsin, Madison, WI, USA
12:30pm		Lunch

Chair: Ralph Bradshaw, University of California, San Francisco, CA

2:00pm	4.1	Interrogation of Cellular Signalling Pathways Using Protein Microarrays Jan van Oostrum, Novartis Institutes of BioMedical Research, Basel, Switzerland
2:40	4.2	Dynamic Interplay Between GlcNAc and Phosphate on Regulatory Proteins Gerald Hart, Johns Hopkins University School of Medicine, Baltimore, MD, USA
3:20	4.3	Mass Spectrometry as a Detector for Protein Ubquitination Steven Gygi, Harvard Medical School, Boston, MA, USA

Symposium Poster Session B
Gold & Venetian Rooms

Co-Chairs: Shenheng Guan and Juan Oses-Prieto, University of California, San Francisco, CA, USA

4:00pm

Poster Session B

Symposium
Grand Ballroom

Chair: John Stults, Genentech, South San Francisco, CA, USA

8:30am	5.1	Systems-Wide Analysis of Protein Complexes in Saccharomyces cerevisiae Anne-Claude Gavin, European Molecular Biology Laboratory, Heidelberg, Germany
9:10	5.2	Degradomics: the Proteolysis of Cell Death James A. Wells, University of California, San Francisco, CA, USA
9:50	5.3	Characterization of GSK3 Dependent Circadian Phosphoproteome Krista Kaasik, University of California, San Francisco, CA, USA
10:30		Coffee break

Chair: Ralph Bradshaw, University of California, San Francisco, CA, USA

10:50am	5.4	Plenary Lecture Interactome Networks Marc Vidal, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA, USA
11:50		Lunch

Chair: Gerard Cagney, Conway Institute, University College Dublin, Ireland, United Kingdom

1:20pm	6.1	The Study of Organelle Dynamics Using Stable Isotope Labeling Kathryn Lilley, University of Cambridge, United Kingdom
2:00	6.2	Elucidating Interacting Regions Within a Large Protein Complex Through Chemical Crosslinking and Mass Spectrometry Gerald Carlson, University of Kansas Medical Center, Kansas City, KS, USA

Symposium Poster Session C

Co-Chairs: Katalin Medzihradszky and Mike Trnka, University of California, San Francisco, CA, USA

2:40pm

Poster Session C

Symposium Dinner

6:00pm		Conference Dinner Reception Fountain/Crystal Rooms
7:00		Conference Dinner Crown Room

Symposium
Grand Ballroom

Chair: A. L. Burlingame, University of California, San Francisco, CA, USA

8:30am	7.1	Sperm Chromatin Proteomics Identifies Evolutionarily Conserved Fertility Factors Diana Chu, San Francisco State University, CA, USA
9:10	7.2	Walking in the Proteomic Footprints of Viral Infection Ileana Cristea, Rockefeller University, New York, NY, USA
9:50	7.3	Exploiting Viruses to Identify Critical Interactions and Therapeutic Targets in the Cellular Networks That Regulate Growth and Survival Clodagh O’Shea, Salk Institute for Biological Studies, La Jolla, CA, USA
10:30		Coffee break
11:00	7.4	High Throughput Characterization of Amplified Nucleic Acids by ESI-TOF Mass Spectrometry: Applications in Pathogen Detection and Characterization Steven Hofstadler, Ibis Biosciences, Carlsbad, CA, USA
11:40		Lunch

Chair: John Stults, Genentech, South San Francisco, CA, USA

1:40pm	8.1	Exploration of the Human Muscle Proteome in Diabetes Susan Weintraub, University of Texas Health Science Center, San Antonio, TX, USA
2:20	8.2	Protein Biomarker Identification in the Cerebrospinal Fluid in Patients with Central Nervous System Lymphoma James Rubenstein, University of California, San Francisco, CA, USA
3:00	8.3	Progress Toward a Biomarker Discovery-to-Verification Pipeline in Clinical Proteomics Steven A. Carr, Broad Institute of MIT and Harvard, Cambridge, MA, USA

Chair: A. L. Burlingame, University of California, San Francisco, CA, USA

3:40pm

8.4

Plenary Lecture The Protein Microscope: An Application of Cell Map Proteomics John J.M. Bergeron, McGill University, Montreal, Canada

 

4:40pm		Closing remarks
5:00		Adjourn