6,156 results found
    1. Computational and Systems Biology
    2. Genetics and Genomics

    Identifying gene expression programs of cell-type identity and cellular activity with single-cell RNA-Seq

    Dylan Kotliar, Adrian Veres ... Pardis C Sabeti
    A novel algorithm, consensus non-negative matrix factorization (cNMF), accurately identifies gene expression programs underlying cell-type identity and cellular activities from single-cell RNA-Seq data.
    1. Chromosomes and Gene Expression
    2. Microbiology and Infectious Disease

    A new protocol for single-cell RNA-seq reveals stochastic gene expression during lag phase in budding yeast

    Abbas Jariani, Lieselotte Vermeersch ... Kevin J Verstrepen
    A new high-throughput method for single-cell RNA-seq in yeast cells shows how stochastic expression of glucose-repressed genes contributes to cell-to-cell differences during adaptation to an environmental change.
    1. Chromosomes and Gene Expression
    2. Developmental Biology

    Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-Seq of Drosophila testes

    Amelie A Raz, Gabriela S Vida ... Margaret T Fuller
    Single nucleus and single cell RNA-seq data uncover novel transcriptomic perspectives in Drosophila testis biology and provide access to user-friendly tools for further scientific discovery in the field.
    1. Developmental Biology
    2. Genetics and Genomics

    Novel cell types and developmental lineages revealed by single-cell RNA-seq analysis of the mouse crista ampullaris

    Brent A Wilkerson, Heather L Zebroski ... Olivia Bermingham-McDonogh
    The elucidation of the cellular composition of the crista and the genes expressed in each cell type is a critical step toward understanding inner ear development, function, and vestibulopathies.
    1. Neuroscience

    Single-cell and single-nucleus RNA-seq uncovers shared and distinct axes of variation in dorsal LGN neurons in mice, non-human primates, and humans

    Trygve E Bakken, Cindy TJ van Velthoven ... Bosiljka Tasic
    Transcriptomic differences between relay neurons in the mature mammalian dLGN are subtle relative to striking differences in morphology and cortical projection targets.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Hydrop enables droplet-based single-cell ATAC-seq and single-cell RNA-seq using dissolvable hydrogel beads

    Florian V De Rop, Joy N Ismail ... Stein Aerts
    New open-source method contains all the tools for extracting open chromatin or RNA from thousands of single cells in parallel for <5% of the cost of state-of-the-art commercial alternatives, paving the way for whole-tissue atlasing and new protocol development.
    1. Developmental Biology
    2. Stem Cells and Regenerative Medicine

    Chromatin accessibility dynamics and single cell RNA-Seq reveal new regulators of regeneration in neural progenitors

    Anneke Dixie Kakebeen, Alexander Daniel Chitsazan ... Andrea Elizabeth Wills
    Regenerating neural progenitors of the Xenopus tropicalis tail prioritize differentiation to motor neuron types earlier than proliferation, a decision partly regulated by the transcription factors Pbx3 and Meis1.
    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. Cell Biology

    Single-cell RNA-seq of heart reveals intercellular communication drivers of myocardial fibrosis in diabetic cardiomyopathy

    Wei Li, Xinqi Lou ... Shigang Qiao
    Cardiac intercellular communication plays a critical role in diabetic myocardial fibrosis and specific targeting of Hrchi fibroblasts may be a potential therapeutic target for diabetic cardiomyopathy.
    1. Cell Biology

    Single-cell RNA-seq reveals hidden transcriptional variation in malaria parasites

    Adam J Reid, Arthur M Talman ... Mara KN Lawniczak
    Plasmodium parasite transcription shifts dramatically along asexual development, and transmission stages variably express important immune evasion genes, suggesting much interesting biology has until now been hidden by bulk analyses.

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