7,752 results found
    1. Physics of Living Systems

    3D single cell migration driven by temporal correlation between oscillating force dipoles

    Amélie Luise Godeau, Marco Leoni ... Daniel Riveline
    A phase shift between local contractions drives 3D cell motility in experiments and in model or how a finite area in the dipole-quadrupole space explains cell motion with zero total force.
    1. Computational and Systems Biology

    Gene regulatory network reconstruction using single-cell RNA sequencing of barcoded genotypes in diverse environments

    Christopher A Jackson, Dayanne M Castro ... David Gresham
    Single cell expression data can be used to determine how regulatory transcription factors and target genes are connected, and is especially useful when studying transcription factors controlling heterogeneous cell states.
    1. Computational and Systems Biology

    Shared enhancer gene regulatory networks between wound and oncogenic programs

    Swann Floc'hlay, Ramya Balaji ... Stein Aerts
    Single-cell multiomics reveals the gene regulatory networks and enhancer logic underlying two distinct wound response cell states in the Drosophila wing imaginal disc and finds similarities with cell states observed in the Ras-scrib tumor model.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Two different cell-cycle processes determine the timing of cell division in Escherichia coli

    Alexandra Colin, Gabriele Micali ... Sven van Teeffelen
    Chromosome replication and a different inter-division process both contribute to division control during unperturbed growth, but if division is delayed by increasing cell width the inter-division process becomes solely rate-limiting.
    1. Cell Biology
    2. Computational and Systems Biology

    Patterns of interdivision time correlations reveal hidden cell cycle factors

    Fern A Hughes, Alexis R Barr, Philipp Thomas
    Bayesian inference identifies hidden dynamics underlying noisy cell division data.
    1. Computational and Systems Biology

    Applying causal discovery to single-cell analyses using CausalCell

    Yujian Wen, Jielong Huang ... Hao Zhu
    Based on benchmarking various methods and analyzing multiple real scRNA-seq datasets, a computational platform/workflow and a set of tips for best practices are developed for analyzing causal interactions or relationships in single cells.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Synthetic analysis of chromatin tracing and live-cell imaging indicates pervasive spatial coupling between genes

    Christopher H Bohrer, Daniel R Larson
    The physical distance between genes in individual cells is the major factor driving co-transcriptional bursts, showing a significant degree of correlation for distances below 400 nm.
    1. Computational and Systems Biology

    Hidden long-range memories of growth and cycle speed correlate cell cycles in lineage trees

    Erika E Kuchen, Nils B Becker ... Thomas Höfer
    The combination of statistical inference and perturbation experiments reveals that trans-generational inheritance of cell size and cell-cycle speed, coupled through a minimum-size checkpoint, shapes paradoxical cell-cycle correlations in lineage trees.
    1. Cancer Biology
    2. Chromosomes and Gene Expression

    Clonal transcriptomics identifies mechanisms of chemoresistance and empowers rational design of combination therapies

    Sophia A Wild, Ian G Cannell ... Kirsty Sawicka
    Lineage resolved single-cell RNA-seq of mammary carcinoma models uncovers a metabolic vulnerability of taxane-resistant clones.
    1. Cancer Biology

    Functional heterogeneity of lymphocytic patterns in primary melanoma dissected through single-cell multiplexing

    Francesca Maria Bosisio, Asier Antoranz ... Joost van den Oord
    Multiplexing and digital analysis of melanoma tissue describe functionally the microenvironment associated with brisk/non-brisk infiltrates and expose the functional incongruences of this morphological classification currently in use for tumor-infiltrating lymphocytes.

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