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Topic: Conflicts and synergies between individuality and collective behavior Cells live in communities where they interact with each other and their environment. By coordinating individuals, such interactions often …

Topic: Nonequilibrium Statistical Physics of Biochemical Oscillators: Phase Accuracy, Entrainability, and Synchronization Abstract: A central question in biology is how living systems manage to process information and perform …

Canonical Correlation Analysis model of the cortical microcircuit Yanis Bahroun and David Lipshutz will be leading a discussion on extensions of Canonical Correlation Analysis to more than two …

Presenter: Michael Hiller, Max Planck Institute, Dresden Topic: Linking phenotypic differences between species to differences in genes and cis-regulatory elements Identifying the DNA changes that underlie phenotypic …

Topic: Clustering time series in the brain: connections to information theory, canonical correlations, and cepstra Sensory information reaches the brain as a stream with non-trivial correlations across …

Title: Molecular maps in tissue and disease by data-driven analysis of spatially resolved transcriptomes in situ. Abstract: RNA-sequencing offers the possibility to analyze the expression of …

Presenter: Michelle Badri, Ph.D. Candidate New York Univesity Title: Applying natural language processing methods to building models of the microbiome Integrating datasets from multiple “omic” datasets is …

Speaker: Jamie Morton Topic: Learning representations of microbe–metabolite interactions

Title: Self-organisation of bidirectional microtubule networks is robust: a mathematical framework and validation in Drosophila. You and I are but a collection of trillions of cells. Why …

Title: Methods for analysis of spatial transcriptomics data with application to amyotrophic lateral sclerosis Spatial genomics technologies enable new approaches to study how cells interact and function in …

Speaker: Nicholas Chua Topic: Feedback on figures for the lamina paper

… unexplored mechanism through which environmental influences (viral infection) and human genetics can synergize to influence human disease.

Speaker: Siavash Golkar Topic: ‘Towards a biological CCA circuit’

Topic: Towards the theory of neuronal computation

Presenter #1: Matthew Morse Topic: Scalable Simulation of Realistic Volume Fraction Red Blood Cell Flows through Vascular Networks Presenter #2: XinXin Du Topic: Collective behaviors in tissues

Presenter: Ren Yi Title: Learning from Data-Rich Problems: case studies on genetic variant calling and transcription factor binding site prediction. Highly-skewed data are commonly seen in …

Speaker: Anirvan Sengupta Topic: Broad overview of kernel methods

Presenter: Chao Tang, Ph.D., Center for Quantitative Biology, Peking University Topic: Bacteria, stem cells, and fruit flies: a physicist in biology It is an exciting time for …

Presenter: Charles Windolf Topic: “Segmentation-enhanced CycleGAN” and its potential use in our automated segmentation pipeline

Presenter: Gokberk Kabacaoglu Topic: Machine-learning-augmented reduced model for simulations of Stokesian suspensions Particulate Stokesian flows describe the hydrodynamics of rigid or deformable particles in Stokes flows …

Presenters: Claudia Skok Gibbs, Research Analyst, Systems Biology Chris Jackson, Postdoctoral Research Associate, New York University Topic: Gene Regulatory Network Inference with the Inferelator Understanding how gene expression …

Topic: The development of neural coding in the zebrafish tectum, and a new statistical model for separating evoked and spontaneous activity. Abstract: During early life, the neural code …

Presenter: Quentin Brosseau, Ph.D. New York University. Topic: Janus nanorods: a recap.

Title: Exploration & extension of the similarity matching framework: feature learning & nonlinear methods & transformation learning

Title: Tissue-specific enhancer functional networks for associating distal regulatory regions to disease Abstract: Understanding disease-associated dysregulation of enhancers has the potential to reveal pathogenic signals, yet …

Presenter: Yuan-nan Young Topic: Hydrodynamics of an active droplet and their suspension

Talk Title: Spike-Based AI Hardware Deep Neural Networks (DNNs) replace the brain’s spike-trains with instantaneous rates that are updated once every time-step. They have …

Presenter: David Lipshutz Title: Journal club presentation: Neural network learning of optimal Kalman prediction and control Description: We discuss the paper “Neural network learning of optimal Kalman prediction …

Title: Developing sequence-based deep learning models: software and applications Abstract: Networks trained on high-throughput sequencing data (for example, ChIP-seq), or ‘sequence-based models’, have become …

Topic: Scaling and Generalizing Bayesian Inference Abstract: A core problem in statistics and machine learning is to approximate difficult-to-compute probability distributions. This problem is especially important …

Presenter: Brato Chakrabarti Department of Mechanical and Aerospace Engineering, University of California San Diego Title: Viscous Dynamics of Passive and Active Microfilaments

Speaker: Romain Cosentino – Ph.D. Student at Rice University Learnable Group Transform for End-to-End Deep Learning

Title: Computation of signal whitening by the olfactory system

Presenter: Wen Yan, Ph.D. Flatiron Research Scientist

The Center for Computational Biology at the Flatiron Institute in New York City will hold a two-day workshop, “The 3D Nucleome”, intended to bring together researchers working …

Speaker: Jiahao Fan will be presenting a paper by Bara A. Bawan, Matthew S. Creamer, Jacob A. Zavatone-Veth and Damon A. Clark Dynamic nonlinearities enable direction opponency …

Flexible slender structures inflow are everywhere. While a great deal is known about individual flexible fibers interacting with fluids, considerably less work has been done on fiber ensembles …

Presenter: Bryan Kaye, Chief Executive Officer, CrossnoKaye An industrial automation company that develops control systems and algorithms that employ quantitative models of large facilities to optimize their energy …

Title: Methods for Studying Evolution The origin and evolution of life on our planet is a fundamental question in biology. Aside from being a natural curiosity, evolutionary studies …

Title: Hydrodynamics and taxis of microswimmers The habitats of microswimmers are crowded with obstacles, biofilms, predators and preys. Microorganisms have evolved to thrive in these environments, however, many …