Systems Biology Seminars
Systems Biology Seminars are held on Thursdays at 12:45 PM
Life Science and Engineering Building, 24 Cummington Mall, Room 103
Join Zoom Meeting | Meeting ID: 982 7959 3345 | Passcode: 058586
Spring 2022
February 3
Jeff Marlow, PhD
Assistant Professor
Department of Biology
Boston University
Title: Hot Spots of Microbial Community Activity in Salt Marsh Sediments
Host: Bioinformatics Program
March 17
Vinay Kartha, PhD
BU Bioinformatics Program Alumnus
Postdoctoral Fellow at Harvard University and the Broad Institute
Title: Gene regulatory network inference using single-cell multi-omics
Host: Bioinformatics Program
March 31
Genevieve Housman, PhD
Postdoctoral Scholar
Section of Genetic Medicine
The University of Chicago
Title: Investigating human and nonhuman primate functional genomics in the skeleton
Host: Simon Kasif, and Kim McCall
April 14
Jan Funke, PhD
Group leader at HHMI’s Janelia Research Campus
Title: Neurotransmitter Classification from Electron Microscopy
Host: Bioinformatics Program
April 21
Dileep Bhattacharya, PhD
Director, De Novo Analytics
Title: Enabling Precision Care with Machine Learning
Host: Charles DeLisi
April 28
Julia TCW, PhD
Assistant Professor
Department of Pharmacology & Experimental Therapeutics
Boston University School of Medicine
Title: Cholesterol and matrisome pathways dysregulated in human APOE ε4 astrocytes and microglia
Host: Bioinformatics Program
Previous Seminars
Fall 2021
September 23
Bioinformatics Challenge Project Presentations
October 21
Liana Lareau, PhD
Assistant Professor
Department of Bioengineering
UC Berkeley
Title: Splicing regulation in single cells: the signal and the noise
Host: Allyson Sgro
October 28
Zeba Wunderlich, PhD
Assistant Professor
Department Biology
Boston University
Title: Robustness and evolvability: transcriptional control in development and immunity
Host: Bioinformatics Program
November 4
Marc A. Edwards, PhD
Assistant Professor of Biology
Amherst College
Title: A mutually inhibitory Ras- PI(3,4)P2 feedback loop regulates migration in Dictyostelium
Host: Allyson Sgro
November 11
Mary Elting, PhD
Assistant Professor
Department of Physics
NC State University
Title: Destructive Testing on the Cytoskeleton: Probing Mechanics of Cell Division by Laser Ablation
Host: Allyson Sgro
Spring 2021
January 28
Ana Fiszbein, PhD
Postdoctoral Fellow, Burge Lab
Department of Biology
MIT
*Joining the BU Department of Biology Jan. 2021
Title: Dynamic determinants of co-transcriptional gene regulation
BU Host: Bioinformatics Program
February 4
Alma Dal Co, PhD
School of Engineering and Applied Sciences
Harvard University
Title: Interaction networks in microbial communities
BU Host: Joe Larkin
February 18
Livnat Jerby-Arnon, PhD
Assistant Professor, Department of Genetics
Chan Zuckerberg Biohub Investigator
Stanford University School of Medicine
Title: Dissecting multifactorial immune evasion mechanisms in cancer: From single-cell data to combinatorial perturbations
BU Host: Simon KasifAssistant Professor
March 11
Ruben Dries, PhD
Assistant Professor of Medicine
Divisions of Hematology and Oncology and Computational Biomedicine
Associate Member, Center for Regenerative Medicine (CReM)
Boston University School of Medicine
Title: Building tools to explore the emerging field of spatial transcriptomics
BU Host: Bioinformatics Program
March 18
Melissa Gymrek, PhD
Assistant Professor of Medicine
Departments of Computer Science and Engineering
UC San Diego
Title: Genome-wide characterization of de novo tandem repeat mutations in humans and their contribution to autism spectrum disorders
BU Host: Simon Kasif
April 1
Ryan Logan, PhD
Associate Professor
Department of Pharmacology and Experimental Therapeutics
Boston University School of Medicine
Title: Novel Sleep and Circadian Mechanisms Linking Rodents and Humans in Opioid Addiction
BU Host: Bioinformatics Program
April 8
Xiaoling Zhang, PhD
BU Bioinformatics PhD Alum
Assistant Professor of Medicine
Departments of Medicine, and Biomedical Genetics
Title: From GWAS to Function: Using Functional Genomics to Identify the Mechanisms Underlying Complex Diseases
BU Host: Bioinformatics Program
April 15
Catherine Freije, PhD
Associate, Rice Lab
Laboratory of Virology and Infectious Disease
Rockefeller University
Title: Point-of-care and multiplexed CRISPR technologies for SARS-CoV-2 detection
*Based on work done in the Sabeti Lab
BU Host: Simon Kasif, and Mo Khalil
Fall 2020
September 24
Dileep Bhattacharya, PhD
Director, Denovo Analytics
Title: Adaptive Intelligence Platform for Cancer Care Delivery
BU Host: Bioinformatics Program
October 1
Megan McClean, PhD
Assistant Professor, Department Biomedical Engineering
University of Wisconsin–Madison
Title: Single-cell measurement and control to unravel yeast gene expression heterogeneity
BU Host: Allyson Sgro
October 15
Gyungah Jun, PhD
Assistant Professor, Biomedical Genetics Section
Department of Medicine, Boston University School of Medicine
Title: Genome Guided Drug Discovery Framework in Alzheimer’s Disease
BU Host: Bioinformatics Program
November 5
*Rescheduled*
Ana Fiszbein, PhD
Postdoctoral Fellow, Burge Lab
Department of Biology
MIT
*Joining the BU Department of Biology Jan. 2021
Title: Dynamic determinants of co-transcriptional gene regulation
BU Host: Bioinformatics Program
November 12
Martin Aryee, PhD
Merkin Institute Fellow at the Broad Institute of MIT and Harvard
Assistant Professor, Department of Pathology, Massachusetts General Hospital & Harvard Medical School
Assistant Professor in the Department of Biostatistics, Harvard TH Chan School of Public Health
Institute Member, Broad Institute of Harvard and MIT
Title: TBA
BU Host: Simon Kasif
December 3
Megan McClean, PhD
Assistant Professor, Department Biomedical Engineering
University of Wisconsin–Madison
Title: Single-cell measurement and control to unravel yeast gene expression heterogeneity
BU Host: Allyson Sgro
Spring 2020
January 30
Nicole Vega, PhD
Assistant Professor, Department of Biology
Emory University
Title: Microbiome ecology in a C. elegans model
BU Host: Mo Khalil
February 6
Brian Cleary, PhD
Broad Fellow, Broad Institute
Title: Studying cell and tissue physiology with random composite experiments
BU Host: Pankaj Mehta
February 13
Tara L. Deans, PhD
Assistant Professor, Department of Biomedical Engineering
University of Utah
Title: Engineering stem cells to create novel delivery vehicles
BU Host: Mo Khalil
February 27
Joel S. Freundlich, PhD
Associate Professor, Pharmacology, Physiology and Neuroscience, and of Medicine
Rutgers University
Title: Engineering Platforms for Infectious Disease Research
BU Host: Bioinformatics Program
March 5
Elham Azizi, PhD
BU Bioinformatics PhD Alum
Herbert & Florence Irving Assistant Professor of Cancer Data Research, in Irving Institute for Cancer Dynamics
Assistant Professor, Department of Biomedical Engineering
Columbia University
Title: Machine Learning for Modeling the Complex Tumor Microenvironment
BU Host: Simon Kasif
March 12 – University Spring Break
March 19 * Rescheduled to October 1
Megan McClean, PhD
Assistant Professor, Department Biomedical Engineering
University of Wisconsin–Madison
Title: Single-cell measurement and control to unravel yeast gene expression heterogeneity
BU Host: Allyson Sgro
March 26 *Rescheduled to October 22
Roy Wollman, PhD
Associate Professor, Chemistry and Biochemistry, and Integrative Biology and Physiology
UCLA
Title: TBA
BU Host: Allyson Sgro
April 2
*Rescheduled Date TBA
Karen E. Kasza, PhD
Clare Boothe Luce Assistant Professor, Department of Mechanical Engineering
Columbia University
Title: TBA
BU Host: Allyson Sgro
April 16
*Rescheduled Date TBA
Gregory Babbitt, PhD
Associate Professor
Thomas H. Gosnell School of Life Sciences
Bioinformatics Program
Rochester Institute of Technology
Title: Machine learning-based detection of functionally conserved binding interactions in molecular dynamic simulations
BU Host: Tom Tullius
April 23
*Rescheduled Date TBA
Livant Jerby, PhD
Burroughs Wellcome Fund CASI Postdoctoral Fellow, Aviv Regev Lab
Broad Institute of MIT and Harvard
Title: TBA
BU Host: Simon Kasif
April 30
*Rescheduled Date TBA
Brian Chow, PhD
Associate Professor, Department of Bioengineering
University of Pennsylvania
Title: TBA
BU Host: Allyson Sgro
Fall 2019
October 17
Einat Segev, PhD
Principal Investigator
Department of Plant and Environmental Sciences
Weizmann Institute of Science
Title: Biogeochemistry of Algal-Bacterial Interactions
BU Host: Daniel Segrè
October 24
Jeffrey J. Tabor, PhD
Associate Professor, Department of Bioengineering
Rice University
Title: Repurposing bacterial two-component systems as sensors for synthetic biology applications
BU Host: Mary Dunlop
November 7
Max Leiserson, PhD
Assistant Professor of Computer Science
University of Maryland, College Park
Title: Methods for Characterizing the Activity of Mutational Processes in Cancer
BU Host: Mark Crovella
November 14
Alberto Cruz-Martin, PhD
Assistant Professor, Department of Biology
Boston University
Title: Defining transcriptional networks in early life stress models and schizophrenia
BU Host: Bioinformatics Program
November 21
Antonina Mitrofanova, PhD
Assistant Professor of Biomedical and Health Informatics
Department of Health Informatics, Rutgers School of Health Professions
Title: New frontiers in predicting markers of treatment response in cancer patients
BU Host: Simon Kasif
December 5
Samuel Brown, PhD
Associate Professor
Biological Sciences
Georgia Tech
Title: Evolution-proof drugs: conditional treatment strategies for effective and evolutionarily robust infection control
Host: Kirill Korolev
Spring 2019
January 24
Daniel Cohen, PhD
Mechanical & Aerospace Engineering
Princeton University
Title: Crowd Control: swarm approaches to engineer collective cell behaviors
BU Host: Allyson Sgro
January 31
Tonya Colpitts, PhD
Assistant Professor, Microbiology
Boston University School of Medicine
Title: Factors influencing arbovirus transmission
Hosted by the Bioinformatics Program
February 7
Kimberly Glass, PhD
Assistant Professor, Harvard Medical School
Associate Scientist, Brigham and Women’s Hospital
Title: Multi-Omic Data Integration in Gene Regulatory Networks
BU Host: Simon Kasif
February 21
Charles Fisher, PhD
Founder and CEO, Unlearn.AI
Title: Deep learning for comprehensive forecasting of Alzheimer’s Disease progression
BU Host: Pankaj Mehta
February 28
Postponed due to weather
March 14
no seminar – spring break
March 21
Peter Park, PhD
Professor, Department of Biomedical Informatics
Harvard Medical School
Title: Searching for Somatic Mutations in the Brain
Host: Simon Kasif
March 28
Herb Levine, PhD
University Distinguished Professor
Departments of Physics and Bioengineering
Northeastern University
Title: What is epithelial-mesenchymal plasticity and why is it important for metastasis?
BU Host: Kirill Korolev
April 4
Michael Baym, PhD
Assistant Professor of Biomedical Informatics
Harvard Medical School
Title: Evolutionary Approaches to Antibiotic Resistance
BU Host: Allyson Sgro
April 11
Esther Rheinbay, PhD
2012 BU Bioinformatics PhD Alum
Member of the Faculty of Medicine
Massachusetts General Hospital Cancer Center
Harvard Medical School
Title: Regulatory Drivers in Cancer
Host: Simon Kasif
April 18
Sara Mostafavi, PhD
Assistant Professor, Departments of Statistics and Medical Genetics
University of British Columbia
Scientist, Centre for Molecular Medicine and Therapeutics
Title: Statistical deconvolution of gene expression in the brain
BU Host: Simon Kasif
April 25
Qiong Yang, PhD
Assistant Professor of Biophysics
University of Michigan
Title: From molecules to development: analyzing topology-function relationship and pattern formation of biological oscillators
BU Host: Allyson Sgro
May 2
Bree Aldridge, PhD
Assistant Professor, Molecular Biology and Microbiology
Tufts University School of Medicine
Title: The long and the short of it: paths to engineering TB treatment
BU Host: Mary Dunlop
Fall 2018
September 27
Hyonho Chun, PhD
Associate Professor, Department of Math & Statistics
Boston University
Title: A nonnegative robust linear model for deconvolution of proportions
BU Host: Bioinformatics Program
October 4
Qiang Cui, PhD
Professor, Department of Chemistry
Boston University
Title: Understanding biomolecular functions with multi-scale computations
BU Host: Bioinformatics Program
October 18
Richard A. Bonneau, PhD
Professor of Biology and Computer Science;
Director, NYU Center for Data Science
Title: Contrasting model-driven and data driven machine learning methods to explore and use biodiversity
BU Host: Simon Kasif
October 23
Alberto Paccanaro, PhD
Professor in Machine Learning & Computational Biology Centre for Systems and Synthetic Biology &
Department of Computer Science
Royal Holloway, University of London
Talk Title: Answering questions in biology and medicine by making inferences on networks
BU Host: Andrew Emili
October 25
Warren Ruder, PhD
Assistant Professor
Department of Bioengineering
University of Pittsburgh
Title: Modeling Emergent Behavior in Synthetic Biological Systems
BU Host: Wilson Wong
November 8
Nelson Lau, PhD
Associate Professor
Department of Biochemistry
Boston University School of Medicine
Title: Can we bioinformatically predict piRNA precursor transcripts?
BU Host: Bioinformatics Program
November 15
Kimberly Glass, PhD
Instructor of Medicine
Channing Division of Network Medicine, Department of Medicine
Brigham and Women’s Hospital and Harvard Medical School
Title: TBA
BU Host: Simon Kasif
November 29
Shirley Liu, PhD
Biostatistics and Computational Biology
Center for Functional Cancer Epigenetics
Harvard & Dana-Farber Cancer Institute
Title: Mining and Integrating Large-scale Tumor Molecular Profiles to Inform Cancer Immunology and Immunotherapy
BU Host: Simon Kasif
December 6
Matthew Weirauch, PhD
Associate Professor, Biomedical Informatics
University of Cincinnati
Title: Gene Regulation in Health and Disease
BU Host: Trevor Siggers
Archive Systems Biology Seminar Fall ’09 – Spring ’18
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