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.

Time and location

(Please note the new schedule! In previous years, the seminar was held on Wednesdays.)

Meeting time: 11:30 AM - 1:00 AM (Eastern Time) virtually on Mondays, unless otherwise specified.

The seminar meets over Zoom (link here).

More information coming soon!

Fall 2022

Date Speaker Title Abstract
Sep. 12 Ron Shamir
Tel Aviv University
Integration, modularity and network analysis for understanding disease PDF
Sep. 19 Jian Peng
High-resolution de novo structure prediction from primary sequence PDF
Oct. 3 Zhiping Weng
UMass Medical
Evolutionary Landscapes of Human cis-regulatory Elements and Transcription Factor Binding Sites in the Mammalian Lineage PDF
Oct. 17 Teresa Przytycka
Delineating the Interactions Between Mutagenic Signatures, Cellular Processes, and Environment Through Computational Approaches PDF
Oct. 24 Lenore Cowen
Topsy-Turvy: integrating a global view into sequence-based PPI prediction PDF
Oct. 31 Xihong Lin
Scalable Integrative Analysis of Large Biobank and Population-Based Whole Genome Sequencing Studies With Variant Functional Annotations PDF
Nov. 7 William Noble
University of Washington
Two machine learning models for translating between modalities of single-cell sequencing data and from mass spectra to peptide sequences PDF
Nov. 14 Vikram Khurana
Brigham and Women's Hospital
Neurotyping: An integrated computational-experimental paradigm to develop targeted therapeutics for Parkinsonís and other CNS diseases.
Nov. 21 Burkhard Rost
Recent Advancements in Protein Langauge Models for Prediction
[Note: Deborah Marks' talk cancelled]
Nov. 28 Martin Vingron
Max Planck Institute
Association Plots and Joint Clustering and Embedding of Genes and Cells PDF
Dec. 5 Barry Honig
Structure-based proteome wide prediction of protein-protein and protein-compound interactions PDF
Dec. 12 Haixu Tang
Indiana University
Deep learning approaches to computational mass spectrometry 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.