Pankaj Mehta

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An exact mapping between the Variational Renormalization Group and Deep Learning pdf

David J. Schwab, Pankaj Mehta, D. Schwab, 2014, ArXiv.

Comment on "Why does deep and cheap learning work so well?" [arXiv: 1608.08225] pdf

David J. Schwab, Pankaj Mehta, D. Schwab, 2016, ArXiv.

Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics.

Alex H. Lang, William J. Riehl, William R. Harcombe, 2014, Cell reports.

A quantitative comparison of sRNA-based and protein-based gene regulation

N. Wingreen, Pankaj Mehta, S. Goyal, 2008, Molecular systems biology.

Intrinsic Noise of microRNA-Regulated Genes and the ceRNA Hypothesis

Pankaj Mehta, Alex H. Lang, Javad Noorbakhsh, 2012, PloS one.

Active regulation of receptor ratios controls integration of quorum-sensing signals in Vibrio harveyi

Ned S Wingreen, Pankaj Mehta, Shu-Wen Teng, 2011, Molecular systems biology.

Measurement of the copy number of the master quorum-sensing regulator of a bacterial cell.

Ned S Wingreen, Pankaj Mehta, Shu-Wen Teng, 2010, Biophysical journal.

Quantifying the Integration of Quorum-Sensing Signals with Single-Cell Resolution

Ned S Wingreen, Pankaj Mehta, Tao Long, 2009, PLoS biology.

Exponential sensitivity of noise-driven switching in genetic networks

N. Wingreen, Pankaj Mehta, R. Mukhopadhyay, 2007, Physical biology.

Approaching the molecular origins of collective dynamics in oscillating cell populations.

Pankaj Mehta, T. Gregor, 2010, Current opinion in genetics & development.

Emergent simplicity in microbial community assembly

Mikhail Tikhonov, D. Segrè, Pankaj Mehta, 2017, Science.

Data-driven modeling reveals a universal dynamic underlying the COVID-19 pandemic under social distancing

Pankaj Mehta, R. Marsland, 2020, medRxiv.

Cellular reprogramming dynamics follow a simple 1D reaction coordinate

Alex H. Lang, Sai Teja Pusuluri, Pankaj Mehta, 2015, Physical biology.

The transition between the niche and neutral regimes in ecology

Charles K. Fisher, Pankaj Mehta, 2013, Proceedings of the National Academy of Sciences.

From intracellular signaling to population oscillations: bridging size- and time-scales in collective behavior

David J Schwab, Pankaj Mehta, Thomas Gregor, 2015, Molecular systems biology.

Dynamical quorum-sensing in oscillators coupled through an external medium.

David J Schwab, Pankaj Mehta, D. Schwab, 2012, Physica D. Nonlinear phenomena.

0 A pr 2 01 2 The Energetic Costs of Cellular Computation

D. Schwab, Pankaj Mehta, 2012 .

The effect of resource dynamics on species packing in diverse ecosystems

Pankaj Mehta, R. Marsland, Wenping Cui, 2019, bioRxiv.

A high-bias, low-variance introduction to Machine Learning for physicists

David J. Schwab, Charles K. Fisher, Pankaj Mehta, 2018, Physics reports.

An exact mapping between the Variational Renormalization Group and Deep Learning

D. Schwab, Pankaj Mehta, 2014, ArXiv.

Thyroid Progenitors Are Robustly Derived from Embryonic Stem Cells through Transient, Developmental Stage-Specific Overexpression of Nkx2-1

Alex H. Lang, S. Monti, Pankaj Mehta, 2017, Stem cell reports.

Emergence of a Stage-Dependent Human Liver Disease Signature with Directed Differentiation of Alpha-1 Antitrypsin-Deficient iPS Cells

Alex H. Lang, Derek C. Liberti, D. Lomas, 2015, Stem cell reports.

HAL-X: Scalable hierarchical clustering for rapid and tunable single-cell analysis

G. Altan-Bonnet, Pankaj Mehta, A. Erez, 2022, PLoS Comput. Biol..

Landauer in the Age of Synthetic Biology: Energy Consumption and Information Processing in Biochemical Networks

Alex H. Lang, D. Schwab, Pankaj Mehta, 2016, Journal of Statistical Physics.

Fast Bayesian Feature Selection for High Dimensional Linear Regression in Genomics via the Ising Approximation pdf

Charles K. Fisher, Pankaj Mehta, Pankaj Mehta, 2014, ArXiv.

Flux Imbalance Analysis and the Sensitivity of Cellular Growth to Changes in Metabolite Pools

Ed Reznik, Daniel Segrè, Pankaj Mehta, 2013, PLoS Comput. Biol..

scTOP: physics-inspired order parameters for cellular identification and visualization

Pankaj Mehta, D. Kotton, M. Herriges, 2023, bioRxiv.

Analytically tractable model for community ecology with many species.

Charles K. Fisher, Pankaj Mehta, Benjamin Dickens, 2015, Physical review. E.

A phase transition between the niche and neutral regimes in ecology

Charles K. Fisher, Pankaj Mehta, 2014 .

Epigenetic Landscapes Explain Partially Reprogrammed Cells and Identify Key Reprogramming Genes

James J. Collins, Hu Li, Pankaj Mehta, 2012, PLoS Comput. Biol..

A minimal model for microbial biodiversity can reproduce experimentally observed ecological patterns

Pankaj Mehta, R. Marsland, Wenping Cui, 2019, Scientific Reports.

The Community Simulator: A Python package for microbial ecology

Robert Marsland, Joshua Goldford, Pankaj Mehta, 2019, bioRxiv.

Identifying Keystone Species in the Human Gut Microbiome from Metagenomic Timeseries Using Sparse Linear Regression

Charles K. Fisher, Pankaj Mehta, Pankaj Mehta, 2014, PloS one.

Machine learning as ecology

Pankaj Mehta, Robert Marsland, Owen Howell, 2019, Journal of physics. A, Mathematical and theoretical.

Statistical physics of community ecology: a cavity solution to MacArthur’s consumer resource model

Guy Bunin, Pankaj Mehta, Madhu Advani, 2018, Journal of statistical mechanics.

Environmental engineering is an emergent feature of diverse ecosystems and drives community structure

Guy Bunin, Pankaj Mehta, Madhu Advani, 2017, bioRxiv.

Statistical Mechanics of Transcription-Factor Binding Site Discovery Using Hidden Markov Models

Anirvan M. Sengupta, David J Schwab, Pankaj Mehta, 2010, Journal of statistical physics.

The in vivo genetic program of murine primordial lung epithelial progenitors

Ignacio S. Caballero, E. Kolaczyk, E. Morrisey, 2020, Nature Communications.

Tregs self-organize into a computing ecosystem and implement a sophisticated optimization algorithm for mediating immune response

Andreas Mayer, Pankaj Mehta, Robert Marsland, 2020, Proceedings of the National Academy of Sciences.

Information processing and signal integration in bacterial quorum sensing

Ned S Wingreen, Pankaj Mehta, Sidhartha Goyal, 2009, Molecular systems biology.

Identifying feasible operating regimes for early T-cell recognition: The speed, energy, accuracy trade-off in kinetic proofreading and adaptive sorting

Pankaj Mehta, Wenping Cui, Pankaj Mehta, 2018, PloS one.

Identifying feasible operating regimes for early T-cell recognition: The speed, energy, accuracy trade-off in kinetic proofreading and adaptive sorting

Pankaj Mehta, Wenping Cui, Pankaj Mehta, 2017, PloS one.

The Minimum Environmental Perturbation Principle: A New Perspective on Niche Theory

Pankaj Mehta, Robert Marsland, Wenping Cui, 2019, bioRxiv.

Constrained optimization as ecological dynamics with applications to random quadratic programming in high dimensions.

Pankaj Mehta, Robert Marsland, Wenping Cui, 2018, Physical review. E.

Available energy fluxes drive a transition in the diversity, stability, and functional structure of microbial communities

Pankaj Mehta, Robert Marsland, Joshua Goldford, 2018, bioRxiv.

Bayesian feature selection for high-dimensional linear regression via the Ising approximation with applications to genomics

Charles K. Fisher, Pankaj Mehta, Pankaj Mehta, 2015, Bioinform..

Zipf's law and criticality in multivariate data without fine-tuning.

David J Schwab, Ilya Nemenman, Pankaj Mehta, 2013, Physical review letters.

Controlling energy landscapes with correlations between minima

Alex H. Lang, Sai Teja Pusuluri, Pankaj Mehta, 2016, 1611.06127.

The strength of protein-protein interactions controls the information capacity and dynamical response of signaling networks

Caleb J. Bashor, Pankaj Mehta, Ching-Hao Wang, 2018, bioRxiv.

Robust coordination of collective oscillatory signaling requires single-cell excitability and fold-change detection

Pankaj Mehta, A. E. Sgro, Alexander Golden, 2021, bioRxiv.

Energetic costs of cellular computation

David J Schwab, Pankaj Mehta, D. Schwab, 2012, Proceedings of the National Academy of Sciences.

Kuramoto model with coupling through an external medium.

D. Schwab, Pankaj Mehta, G. Plunk, 2011, Chaos.

Modeling oscillations and spiral waves in Dictyostelium populations.

Thomas Gregor, David J Schwab, Pankaj Mehta, 2014, Physical review. E, Statistical, nonlinear, and soft matter physics.

Diverse communities behave like typical random ecosystems

Pankaj Mehta, Robert Marsland, Wenping Cui, 2019, bioRxiv.

Cross-feeding shapes both competition and cooperation in microbial ecosystems

Pankaj Mehta, R. Marsland, 2021, bioRxiv.

Thermodynamics of statistical inference by cells.

Thierry Mora, Charles K. Fisher, Pankaj Mehta, 2014, Physical review letters.

Landauer in the Age of Synthetic Biology: Energy Consumption and Information Processing in Biochemical Networks

David J. Schwab, Alex H. Lang, Pankaj Mehta, 2015, bioRxiv.

Niche and neutral theories correspond to distinct ecological phases

Charles K. Fisher, Pankaj Mehta, 2013 .

Arnold tongues in oscillator systems with nonuniform spatial driving.

Pankaj Mehta, A. E. Sgro, Alexander Golden, 2020, Physical review. E.

Spatial gradient sensing and chemotaxis via excitability in Dictyostelium discoideum.

Xingbo Yang, Daniel P Shams, Pankaj Mehta, 2020, Physical review. E.

Supporting Information : Thermodynamics of Statistical Inference by Cells

Charles K. Fisher, Alex H. Lang, T. Mora, 2014 .

Thermodynamic Paradigm for Solution Demixing Inspired by Nuclear Transport in Living Cells.

Pankaj Mehta, M. Elbaum, Ching-Hao Wang, 2016, Physical review letters.

Scalable clustering with supervised linkage methods

G. Altan-Bonnet, Pankaj Mehta, A. Erez, 2021, bioRxiv.

Approaching the Molecular Origins of Collective Dynamics in Oscillating Cell Populations This Review Comes from a Themed Issue on Genetics of System Biology Edited Oscillations in Communicating Cell Populations Molecular Interactions Cellular Interactions

Pankaj Mehta, T. Gregor, Jeff Hasty, 2022 .

A high-bias, low-variance introduction to Machine Learning for physicists

Charles K. Fisher, D. Schwab, Pankaj Mehta, 2018, Physics reports.

Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics.

Alex H. Lang, William R. Harcombe, D. Segrè, 2014, Cell reports.

Bayesian Feature Selection with Strongly Regularizing Priors Maps to the Ising Model

Charles K. Fisher, Pankaj Mehta, Pankaj Mehta, 2014, Neural Computation.

Supporting Information Two-Dimensionality of Yeast Colony Expansion Accompanied by Pattern Formation

Lin Chen, Gábor Balázsi, Pankaj Mehta, 2014 .