Health Research and Policy

Abstract

DATE: October 11, 2012
TIME: 1:15 - 3:00 pm
LOCATION: Li Ka Shing Center for Learning (LKSC)
291 Campus Dr, Room LK 209
1:15 pm - 3:00 pm
TITLE: Statistical Mass Spectrometry-based Proteomics
SPEAKER: Olga Vitek, Associate Professor
Department of Statistics, Department of Computer Science, Purdue University
Currently Visiting Associate Professor, Department of Radiology and Canary Center, Stanford School of Medicine

Mass spectrometry-based proteomics studies proteins in complex biological mixtures. It enables a global quantification of relatively abundant proteins with liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS), and a targeted quantification of lower-abundant proteins with selected reaction monitoring (SRM). The accuracy of the workflows can be enhanced by chemical or metabolic labeling. Additional spatial information can be extracted by acquiring spectra from adjacent locations of a tissue in an imagining mode.

Stochastic variation and uncertainty in interpretation are hallmarks of proteomic experiments, and statistical experimental design and analysis are key. Our goal is to develop statistical methodology for quantitative proteomics to (i) accurately quantify proteins that change in abundance between conditions, (ii) design cost-effective experiments that do not compromise the accuracy, and (iii) maximize biologically relevant interpretations. While some of these goals can be achieved with standard statistical tools, others require new and more complex solutions. This talk will discuss the methods that we recently developed, as well as the open-source software available at www.stat.purdue.edu/~ovitek/

Suggested readings:

http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1002277

http://mcponline.org/content/early/2011/12/21/mcp.M111.014662.abstract

Stanford Medicine Resources:

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