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Presenter: Ramin Golestanian, Ph.D. Max Planck Institute for Dynamics and Self-Organization in Göttingen and Oxford University Title: A classical analogue of Bose-Einstein condensation in active …

Presenter: Sonya Hanson, Ph.D., Structural & Molecular Biophysics Collaboration, Center for Computational Biology Title: Elucidating mechanisms of biological temperature sensing Abstract: Despite the existence of engineered thermometers since …

Discussion Leads: Hayden Nunley & Binglun Shao Paper: Nucleus downscaling in mouse embryos is regulated by cooperative developmental and geometric programs

1st Speaker: Jaspreet Singh, Ph.D., Flatiron Research Fellow, Developmental Dynamics Title: Biophysics of Arrested Furrows Absrtact: Cell division is often incomplete in early-stage gametogenesis: instead of …

Presenter: Lingdi Zhang, Ph.D. Candidate, New York University Title: Characterization of the respiratory tract microbiome in influenza infection Abstract: Recent studies have shown that the microbiome of …

Presenter: Dr. Benjamin B. Machta, Ph.D. Assistant Professor of Physics Yale University Title: Surface densities prewet a nearly critical membrane. Abstract: Proteins and nucleic acids can phase …

Presenter: Lingdi Zhang

Speaker: Rohit Supekar, MIT Paper: https://arxiv.org/pdf/2101.06568.pdf

Speaker: Richard Bonneau, Ph.D., Group Leader, Systems Biology Topic: “Mad max-pool beyond thunder-matrix: biology in a post alignment world.”

Presenter: Ren Yi, Ph.D. Candidate, New York University Title: Multitask learning methods for efficient learning of data poor problems in biology Abstract: The recent advancement in computational …

Guest Presenter: James Zou, Ph.D. Assistant Professor, Biomedical and Data Science Stanford University Title: Computer vision to phenotype human diseases across physiological and molecular scales. Abstract: I …

Presenter: Ren Yi

Speaker: Sayantan Dutta, Princeton University

Speaker: Maria Avdeeva, Ph.D, Associate Research Scientist, DevDy Topic: A data fusion approach to developmental patterning

Presenter: Aaron Watters, Ph.D., Senior Software Engineer, Flatiron Institute Title: Landscapes of Binary Classification Ranking Abstract: This talk informally explores and compares methods for evaluating binary classification …

Presenter: Andreas Tjarnberg, Postdoctoral Associate, New York University Title: Translating gene regulatory network inference into a white-box deep learning framework Abstract: Gene regulatory network (GRN) inference is …

Speaker: Wen Yan, Ph.D. Research Scientist, Biophysical Modeling Topic: From pairwise crosslinker kinetics to collective bundling in active assemblies.

Presenter: Claudia Skok Gibbs, Research Analyst, Systems Biology Group, Center for Computational Biology, Flatiron Institute Title: Learning cell-type-specific single-cell gene regulatory networks in the developing …

Speaker: Elizabeth T. Ables, Ph. D., Associate Professor, Dept. of Biology, East Carolina University Topic: Counting cell divisions in the Drosophila germline.

Presenter: Aaron Wong, Ph.D., Data Scientist & Project Leader, Genomics Topic: HumanBase – a platform for data-driven predictions in human molecular biology

Presenter: Douglas Renfrew

Guest Presenter: Stefano Di Talia, Ph.D. Associate Professor of Cell Biology Duke University School of Medicine Topic: Waves and flows in embryogenesis and regeneration Abstract: Embryonic development …

Presenter: Anders Rasmussen, Associate Software Engineer, Systems Biology Group, Center for Computational Biology. Title: Inferring Regulatory Dynamics from Pseudotemporally Ordered Single Cell Data Abstract: Single-cell RNA-seq …

Presenter: Madhav Mani, Ph.D., Assistant Professor of Engineering Sciences and Applied Mathematics Northwestern University Topic: Descartes’ Duck and Picasso’s Bull Abstract: The Duck of Vaucanson served …

Presenter: Justin B. Kinney, Ph.D., Assistant Professor Simons Center for Quantitative Biology Cold Spring Harbor Laboratory Topic: Massively Parallel Reporter Assays, Machine Learning, and the Biophysics of …

Presenter: Julia Kohler Leman, Ph.D., Systems Biology Group, Center for Computational Biology Title: Mapping the microbiome by large-scale structure and function prediction Abstract: The microbiome consists …

Topic: Cilia, collectively

Presenter: Jamie Morton, Ph.D., Systems Biology Group, Center for Computational Biology Inferring Principal Components in the Simplex with Multinomial Variational Autoencoders Covariance estimation on high-dimensional data …

Speaker: Dr. Sushmita Roy, Ph.D., Assistant Professor, Department of Biostatistics and Medical Informatics Wisconsin Institue for Discovery / University of Wisconsin, Madison Topic: Network-based approaches for examining …

Machine learning and artificial intelligence play an increasingly critical role in modern science. This lecture series will provide an introductory tutorial on these methods for researchers interested in …

Guest Presenter: Evelyn Tang, Ph.D., Group Leader, Department of Living Matter Physics Max Planck Institute of Dynamics and Self-Organization Title: Surfacing robust function in living matter …

Speaker: Pilar Cossio, Ph.D., Tandem Group Leader, Max Planck Institute of Biophysics & and University of Antioquia Topic: Recovering the rates from metadynamics simulations Abstract: Metadynamics enables the …

Topic: Machine learning approaches for disease genomics

Guest Presenter: Dr. Elena F. Koslover, Ph.D., Assistant Professor, Department of Physics University of California, San Diego

Talk Topic: A Higher-Order Spectral Analysis of Active Suspensions

Topic: Modeling single-cell gene regulatory networks with the Inferelator.

Lab meeting is canceled today

A Graph Interpretation of the Cyclic Peptoid Conformational Energy Landscape Cyclic peptoids are known to adopt various stable conformations, but the details of their complex energy landscape have …

Topic: General Discussion

Title: Biologically plausible circuits for segmenting time-series data