Large-scale integration of single-cell transcriptomic data captures transitional progenitor states in mouse skeletal muscle regeneration

Anomalous collapses of Nares Strait ice arches leads to enhanced export of Arctic sea ice

(2021) G. W. K. Moore et al.   Nature Communications

Tissue damage induces a conserved stress response that initiates quiescent muscle stem cell activation

(2021) Léo Machado et al.   Cell Stem Cell

Spatiotemporal single-cell RNA sequencing of developing chicken hearts identifies interplay between cellular differentiation and morphogenesis

(2021) Madhav Mantri et al.   Nature Communications

Single-Cell Transcriptome Atlas of Murine Endothelial Cells

(2020) Joanna Kalucka et al.   CELL

Single-cell transcriptional diversity is a hallmark of developmental potential

(2020) Gunsagar S. Gulati et al.   SCIENCE

Single-cell transcriptional profiles in human skeletal muscle

(2020) Aliza B. Rubenstein et al.   Scientific Reports

Heterogeneity of Satellite Cells Implicates DELTA1/NOTCH2 Signaling in Self-Renewal

(2020) Valeria Yartseva et al.   Cell Reports

Aging induces aberrant state transition kinetics in murine muscle stem cells

(2020) Jacob C. Kimmel et al.   DEVELOPMENT

Tuning Macrophage Phenotype to Mitigate Skeletal Muscle Fibrosis

(2020) David M. Stepien et al.   JOURNAL OF IMMUNOLOGY

Single-cell RNA counting at allele and isoform resolution using Smart-seq3

(2020) Michael Hagemann-Jensen et al.   NATURE BIOTECHNOLOGY

Single-Cell Analysis of the Muscle Stem Cell Hierarchy Identifies Heterotypic Communication Signals Involved in Skeletal Muscle Regeneration

(2020) Andrea J. De Micheli et al.   Cell Reports

A single-cell transcriptomic atlas characterizes ageing tissues in the mouse

(2020)   NATURE

Heterogeneous origins and functions of mouse skeletal muscle-resident macrophages

(2020) Xingyu Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Myocyte-derived Myomaker expression is required for regenerative fusion but exacerbates membrane instability in dystrophic myofibers

(2020) Michael J. Petrany et al.   JCI Insight

Inhibition of inflammatory CCR2 signaling promotes aged muscle regeneration and strength recovery after injury

(2020) Roméo S. Blanc et al.   Nature Communications

Single-nucleus RNA-seq and FISH identify coordinated transcriptional activity in mammalian myofibers

(2020) Matthieu Dos Santos et al.   Nature Communications

From whole-mount to single-cell spatial assessment of gene expression in 3D

(2020) Lisa N. Waylen et al.   Communications Biology

Single-nucleus RNA-seq identifies transcriptional heterogeneity in multinucleated skeletal myofibers

(2020) Michael J. Petrany et al.   Nature Communications

SoupX removes ambient RNA contamination from droplet-based single-cell RNA sequencing data

(2020) Matthew D Young et al.   GigaScience

The single-cell transcriptional landscape of mammalian organogenesis

(2019) Junyue Cao et al.   NATURE

High-Dimensional Single-Cell Cartography Reveals Novel Skeletal Muscle-Resident Cell Populations

(2019) Lorenzo Giordani et al.   MOLECULAR CELL

Single-cell analysis of adult skeletal muscle stem cells in homeostatic and regenerative conditions

(2019) Stefania Dell'Orso et al.   DEVELOPMENT

The Human Lung Cell Atlas - A high-resolution reference map of the human lung in health and disease

(2019) Herbert B Schiller et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Nonclassical Monocytes in Health and Disease

(2019) Prakash Babu Narasimhan et al.   Annual Review of Immunology

The role of satellite and other functional cell types in muscle repair and regeneration

(2019) Bide Chen et al.   JOURNAL OF MUSCLE RESEARCH AND CELL MOTILITY

Efficient integration of heterogeneous single-cell transcriptomes using Scanorama

(2019) Brian Hie et al.   NATURE BIOTECHNOLOGY

DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors

(2019) Christopher S. McGinnis et al.   Cell Systems

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Skewed macrophage polarization in aging skeletal muscle

(2019) Chang‐Yi Cui et al.   AGING CELL

Multiplexed RNAscope and immunofluorescence on whole-mount skeletal myofibers and their associated stem cells

(2019) Allison P. Kann et al.   DEVELOPMENT

Fibro–Adipogenic Progenitors Cross-Talk in Skeletal Muscle: The Social Network

(2019) Beatrice Biferali et al.   Frontiers in Physiology

Fast, sensitive and accurate integration of single-cell data with Harmony

(2019) Ilya Korsunsky et al.   NATURE METHODS

Coding Cell Identity of Human Skeletal Muscle Progenitor Cells Using Cell Surface Markers: Current Status and Remaining Challenges for Characterization and Isolation

(2019) Sin-Ruow Tey et al.   Frontiers in Cell and Developmental Biology

Visualizing structure and transitions in high-dimensional biological data

(2019) Kevin R. Moon et al.   NATURE BIOTECHNOLOGY

A Muscle Stem Cell Support Group: Coordinated Cellular Responses in Muscle Regeneration

(2018) Michael N. Wosczyna et al.   DEVELOPMENTAL CELL

Exponential scaling of single-cell RNA-seq in the past decade

(2018) Valentine Svensson et al.   Nature Protocols

Midkine downregulation increases the efficacy of quercetin on prostate cancer stem cell survival and migration through PI3K/AKT and MAPK/ERK pathway

(2018) Suat Erdogan et al.   BIOMEDICINE & PHARMACOTHERAPY

Dynamics of cellular states of fibro-adipogenic progenitors during myogenesis and muscular dystrophy

(2018) Barbora Malecova et al.   Nature Communications

Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris

(2018) et al.   NATURE

ERBB3 and NGFR mark a distinct skeletal muscle progenitor cell in human development and hPSCs

(2017) Michael R. Hicks et al.   NATURE CELL BIOLOGY

Power analysis of single-cell RNA-sequencing experiments

(2017) Valentine Svensson et al.   NATURE METHODS

Single-cell sequencing reveals dissociation-induced gene expression in tissue subpopulations

(2017) Susanne C van den Brink et al.   NATURE METHODS

In situ click chemistry generation of cyclooxygenase-2 inhibitors

(2017) Atul Bhardwaj et al.   Nature Communications

In Situ Fixation Redefines Quiescence and Early Activation of Skeletal Muscle Stem Cells

(2017) Léo Machado et al.   Cell Reports

TEAD transcription factors are required for normal primary myoblast differentiation in vitro and muscle regeneration in vivo

(2017) Shilpy Joshi et al.   PLoS Genetics

CX3CR1 deficiency delays acute skeletal muscle injury repair by impairing macrophage functions

(2016) Wanming Zhao et al.   FASEB JOURNAL

Molecular circuitry of stem cell fate in skeletal muscle regeneration, ageing and disease

(2016) Albert E. Almada et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Isolation of skeletal muscle stem cells by fluorescence-activated cell sorting

(2015) Ling Liu et al.   Nature Protocols

A Mass Spectrometric-Derived Cell Surface Protein Atlas

(2015) Damaris Bausch-Fluck et al.   PLoS One

Functional Receptors and Intracellular Signal Pathways of Midkine (MK) and Pleiotrophin (PTN)

(2014) Chuanying Xu et al.   BIOLOGICAL & PHARMACEUTICAL BULLETIN

Rejuvenation of the muscle stem cell population restores strength to injured aged muscles

(2014) Benjamin D Cosgrove et al.   NATURE MEDICINE

Requirement of MEF2A, C, and D for skeletal muscle regeneration

(2014) N. Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cellular dynamics in the muscle satellite cell niche

(2013) C Florian Bentzinger et al.   EMBO REPORTS

Macrophages: Supportive cells for tissue repair and regeneration

(2013) Bénédicte Chazaud   IMMUNOBIOLOGY

Normal muscle regeneration requires tight control of muscle cell fusion by tetraspanins CD9 and CD81

(2013) Stéphanie Charrin et al.   Nature Communications

Transcription factor TEAD4 regulates expression of Myogenin and the unfolded protein response genes during C2C12 cell differentiation

(2011) A Benhaddou et al.   CELL DEATH AND DIFFERENTIATION

Promotion of self-renewal of embryonic stem cells by midkine

(2010) Xing Yao et al.   ACTA PHARMACOLOGICA SINICA