Bioinformatics Seminar

The Bioinformatics Seminar is co-sponsored by the Department of Mathematics at the Massachusetts Institute of Technology and the Theory of Computation group at MIT's Computer Science and Artificial Intelligence Laboratory (CSAIL). The seminar series focuses on highlighting areas of research in the field of computational biology. This year, we are hoping to highlight three topics: (1) language models and their uses in biology and biomedicine, (2) ethical and societal issues in biomedical data (e.g. privacy, fairness), and (3) single-cell biology.

Spring 2007

Date Speaker Title Abstract
Feb 14 Jadwiga Bienkowska, BU Gene expression analysis and patient stratification: Prioritization of genes relevant in BrCa PDF
Feb 21 Vladimer Kuznetsov, Genome Institute of Singapore Computational identification of genetic patterns and essential risk factors associated with clinical heterogeneity of aggressiveness of breast cancer PDF
Feb 28 Vincent Danos, CNRS kappa and programmable self-assembly PDF
Mar 7 Aedin Culhane, Harvard Putting microarray data in context: Multivariate approaches for exploratory analysis of multiple biological datasets PDF
Mar 14 Chris Bakal, Broad Institute Defining the Components Of Local Signaling Networks That Regulate Cell Morphology Using Quantitative Morphological Signatures PDF
Mar 21 Alex Stark, Broad Institute Small RNAs: computational challenges and global role in gene regulation PDF
Apr 2 Nancy Amato, Texas A&M Using Motion Planning to Study Molecular Motions PDF
Apr 4 Marco Ramoni, HMS/HST Genomewide Dissection and Predictive Modeling of Complex Traits PDF
Apr 11 Boris Shakhnovich, Broad Institute Selective Constraints in Evolution of Gene Families and TBP-Dependent Promoters PDF
Apr 18 Dana Peer, Columbia Genetic Variation and Regulatory Networks: Mechanisms and Complexity PDF
Apr 25 Alexandre Morozov, Rockefeller University Using biophysical models to understand eukaryotic chromatin structure and regulation of gene transcription PDF
May 2 Yann Ponty, BC Asymptotics of RNA Shapes: A precise study of an alternative representation for the RNA secondary structure PDF
May 9 Yi-Kuo Yu, NIH/NLM/NCBI Mass Spectrometry and its modern evolution -- from Atomic Bomb to Proteomics and Beyond PDF

Past Terms

A listing of the Bioinformatics Seminar series home pages from prior terms.

Organizers and Information

The Bioinformatics Seminar is hosted by MIT Simons Professor of Mathematics and head of the Computation and Biology group at CSAIL Bonnie Berger. Professor Berger is also Faculty of Harvard-MIT Health Sciences & Technology, Associate Member of the Broad Institute of MIT and Harvard, Faculty of MIT CSB, and Affiliated Faculty of Harvard Medical School.

The seminar is announced weekly via email to members of the seminar's mailing list and to those on CSAIL's event calendar list. It is also posted in the BioWeek calendar.

Bonnie Berger:

Shuvom Sadhuka (TA):

To be added to the seminar's email announcement list or for any questions you have about the seminar, please mail

If you plan to enroll in the associated course, 18.418/HST.504: Topics in Computational Molecular Biology, please contact Professor Berger ( and cc TA Shuvom Sadhuka ( for more information.