[Bioinformatics] Monday's Bioinformatics Seminar: Orly Alter, Ph.D.

[Bioinformatics IDP-Seminar Series]

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Proudly Presents a Special Seminar

Orly Alter, Ph.D.

USTAR Associate Professor
Department of Bioengineering and
Scientific Computing and Imaging (SCI) Institute

University of Utah

"Discovery of Cellular Mechanisms and Prognosis of Cancers from Mathematical Modeling of DNA Microarray Data"

Monday, September 27th, 2010

4:00 - 5:00 pm

CNSI 5th Floor Presentation Space


Abstract
Future discovery and control in biology and medicine will come from the mathematical modeling of large-scale molecular biological data, such as DNA microarray data, just as Kepler discovered the laws of planetary motion by using mathematics to describe trends in astronomical data [1].

In this talk, I will first describe novel generalizations of the matrix and tensor computations that underlie theoretical physics (e.g., [2,3]). In my Genomic Signal Processing Lab we are developing these computations for comparison and integration of multiple high-dimensional datasets recording different aspects of, e.g., the cell division cycle and cancer.

Second, I will describe the prediction of a previously unknown mechanism of regulation by using these computations to uncover a genome-wide pattern of correlation between DNA replication initiation and mRNA expression during the cell cycle [4,5]. This computational prediction was recently experimentally verified by analyzing global mRNA expression levels in synchronized cultures under conditions that prevent DNA replication initiation without delaying cell cycle progression [6].

Last, I will describe the computational prognosis of brain cancers by using these computations to compare global DNA copy numbers in patient-matched normal and tumor samples from the Cancer Genome Atlas [7].

1. Alter, PNAS 103, 16063 (2006); http://dx.doi.org/10.1073/pnas.0607650103<https://wmail.austin.utexas.edu/owa/redir.aspx?C=5c710c3cea2149b599b46080c6b3c251&URL=http%3a%2f%2fdx.doi.org%2f10.1073%2fpnas.0607650103>
2. Alter, Brown & Botstein, PNAS 100, 3351 (2003); http://dx.doi.org/10.1073/pnas.0709146104<https://wmail.austin.utexas.edu/owa/redir.aspx?C=5c710c3cea2149b599b46080c6b3c251&URL=http%3a%2f%2fdx.doi.org%2f10.1073%2fpnas.0709146104>

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