Identification of EMT signaling cross-talk and gene regulatory networks by single-cell RNA sequencing

AP Deshmukh, SV Vasaikar… - Proceedings of the …, 2021 - National Acad Sciences
The epithelial-to-mesenchymal transition (EMT) plays a critical role during normal
development and in cancer progression. EMT is induced by various signaling pathways …

Observation of universal ageing dynamics in antibiotic persistence

Y Kaplan, S Reich, E Oster, S Maoz, I Levin-Reisman… - Nature, 2021 - nature.com
Stress responses allow cells to adapt to changes in external conditions by activating specific
pathways. Here we investigate the dynamics of single cells that were subjected to acute …

Intrinsically disordered proteins and conformational noise: The hypothesis a decade later

P Kulkarni, R Salgia, G Rangarajan - Iscience, 2023 - cell.com
Phenotypic plasticity is the ability of individual genotypes to produce different phenotypes in
response to environmental perturbations. We previously postulated how conformational …

Landscape of epithelial–mesenchymal plasticity as an emergent property of coordinated teams in regulatory networks

K Hari, V Ullanat, A Balasubramanian, A Gopalan… - Elife, 2022 - elifesciences.org
Elucidating the design principles of regulatory networks driving cellular decision-making has
fundamental implications in mapping and eventually controlling cell-fate decisions. Despite …

Immunosuppressive traits of the hybrid epithelial/mesenchymal phenotype

S Sahoo, SP Nayak, K Hari, P Purkait… - Frontiers in …, 2021 - frontiersin.org
Recent preclinical and clinical data suggests enhanced metastatic fitness of hybrid
epithelial/mesenchymal (E/M) phenotypes, but mechanistic details regarding their survival …

Comparative study of transcriptomics-based scoring metrics for the epithelial-hybrid-mesenchymal spectrum

P Chakraborty, JT George, S Tripathi… - … in bioengineering and …, 2020 - frontiersin.org
The Epithelial–mesenchymal transition (EMT) is a cellular process implicated in embryonic
development, wound healing, and pathological conditions such as cancer metastasis and …

Machine learning meets physics: A two-way street

H Levine, Y Tu - Proceedings of the National Academy of Sciences, 2024 - pnas.org
This article introduces a special issue on the interaction between the rapidly expanding field
of machine learning and ongoing research in physics. The first half of the papers in this …

Minimal frustration underlies the usefulness of incomplete regulatory network models in biology

S Tripathi, DA Kessler, H Levine - Proceedings of the …, 2023 - National Acad Sciences
Regulatory networks as large and complex as those implicated in cell-fate choice are
expected to exhibit intricate, very high-dimensional dynamics. Cell-fate choice, however, is a …

Group behavior and emergence of cancer drug resistance

S Bhattacharya, A Mohanty, S Achuthan, S Kotnala… - Trends in cancer, 2021 - cell.com
Drug resistance is a major impediment in cancer. Although it is generally thought that
acquired drug resistance is due to genetic mutations, emerging evidence indicates that …

Topological signatures in regulatory network enable phenotypic heterogeneity in small cell lung cancer

L Chauhan, U Ram, K Hari, MK Jolly - Elife, 2021 - elifesciences.org
Phenotypic (non-genetic) heterogeneity has significant implications for the development and
evolution of organs, organisms, and populations. Recent observations in multiple cancers …