Related references
Note: Only part of the references are listed.BBKNN: fast batch alignment of single cell transcriptomes
Krzysztof Polanski et al.
BIOINFORMATICS (2020)
Single-Cell Transcriptomics of Human and Mouse Lung Cancers Reveals Conserved Myeloid Populations across Individuals and Species
Rapolas Zilionis et al.
IMMUNITY (2019)
Single-cell transcriptomes of the regenerating intestine reveal a revival stem cell
Arshad Ayyaz et al.
NATURE (2019)
Self-organization and symmetry breaking in intestinal organoid development
Denise Serra et al.
NATURE (2019)
Scrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data
Samuel L. Wolock et al.
CELL SYSTEMS (2019)
Hydraulic control of mammalian embryo size and cell fate
Chii Jou Chan et al.
NATURE (2019)
Self-organization of stem cells into embryos: A window on early mammalian development
Marta N. Shahbazi et al.
SCIENCE (2019)
Size control of the inner ear via hydraulic feedback
Kishore R. Mosaliganti et al.
ELIFE (2019)
YAP/TAZ-Dependent Reprogramming of Colonic Epithelium Links ECM Remodeling to Tissue Regeneration
Shiro Yui et al.
CELL STEM CELL (2018)
Linking stem cell function and growth pattern of intestinal organoids
Torsten Thalheim et al.
DEVELOPMENTAL BIOLOGY (2018)
Morphogenesis and Compartmentalization of the Intestinal Crypt
Kaelyn D. Sumigray et al.
DEVELOPMENTAL CELL (2018)
Universality of clone dynamics during tissue development
Steffen Rulands et al.
NATURE PHYSICS (2018)
Parasitic helminths induce fetal-like reversion in the intestinal stem cell niche
Ysbrand M. Nusse et al.
NATURE (2018)
Intestinal crypts recover rapidly from focal damage with coordinated motion of stem cells that is impaired by aging
Jiahn Choi et al.
SCIENTIFIC REPORTS (2018)
Tales from the crypt: intestinal niche signals in tissue renewal, plasticity and cancer
Maureen Spit et al.
OPEN BIOLOGY (2018)
SPRING: a kinetic interface for visualizing high dimensional single-cell expression data
Caleb Weinreb et al.
BIOINFORMATICS (2018)
SCANPY: large-scale single-cell gene expression data analysis
F. Alexander Wolf et al.
GENOME BIOLOGY (2018)
Single-cell barcoding and sequencing using droplet microfluidics
Rapolas Zilionis et al.
NATURE PROTOCOLS (2017)
In Vivo Imaging Reveals Existence of Crypt Fission and Fusion in Adult Mouse Intestine
Lotte Bruens et al.
GASTROENTEROLOGY (2017)
A single-cell survey of the small intestinal epithelium
Adam L. Haber et al.
NATURE (2017)
Intestinal Stem Cell Niche: The Extracellular Matrix and Cellular Components
Laween Meran et al.
STEM CELLS INTERNATIONAL (2017)
Organ size control via hydraulically gated oscillations
Teresa Ruiz-Herrero et al.
DEVELOPMENT (2017)
Generation of Mouse and Human Organoid-Forming Intestinal Progenitor Cells by Direct Lineage Reprogramming
Shizuka Miura et al.
CELL STEM CELL (2017)
Gastrointestinal organoids: How they gut it out
Sebastian R. Merker et al.
DEVELOPMENTAL BIOLOGY (2016)
β2-Adrenergic receptor agonists activate CFTR in intestinal organoids and subjects with cystic fibrosis
Lodewijk A. W. Vijftigschild et al.
EUROPEAN RESPIRATORY JOURNAL (2016)
Visualization of a short-range Wnt gradient in the intestinal stem-cell niche
Homier F. Farin et al.
NATURE (2016)
Paneth Cell-Rich Regions Separated by a Cluster of Lgr5+Cells Initiate Crypt Fission in the Intestinal Stem Cell Niche
Alistair J. Langlands et al.
PLOS BIOLOGY (2016)
Bending Gradients: How the Intestinal Stem Cell Gets Its Home
Amy E. Shyer et al.
CELL (2015)
Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells
Allon M. Klein et al.
CELL (2015)
Stem Cell Heterogeneity and Plasticity in Epithelia
Giacomo Donati et al.
CELL STEM CELL (2015)
An individual based computational model of intestinal crypt fission and its application to predicting unrestrictive growth of the intestinal epithelium
Carmen Pin et al.
INTEGRATIVE BIOLOGY (2015)
Yap-dependent reprogramming of Lgr5+ stem cells drives intestinal regeneration and cancer
Alex Gregorieff et al.
NATURE (2015)
Chemical activation of the mechanotransduction channel Piezo1
Ruhma Syeda et al.
ELIFE (2015)
A fast algorithm for computation of discrete Euclidean distance transform in three or more dimensions on vector processing architectures
Yuriy Mishchenko
SIGNAL IMAGE AND VIDEO PROCESSING (2015)
Biased competition between Lgr5 intestinal stem cells driven by oncogenic mutation induces clonal expansion
Hugo J. Snippert et al.
EMBO REPORTS (2014)
Piezo Proteins: Regulators of Mechanosensation and Other Cellular Processes
Sviatoslav N. Bagriantsev et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2014)
Adult intestinal stem cells: critical drivers of epithelial homeostasis and regeneration
Nick Barker
NATURE REVIEWS MOLECULAR CELL BIOLOGY (2014)
Quantification of Crypt and Stem Cell Evolution in the Normal and Neoplastic Human Colon
Ann-Marie Baker et al.
CELL REPORTS (2014)
The Intestinal Crypt, A Prototype Stem Cell Compartment
Hans Clevers
CELL (2013)
Transplantation of Expanded Fetal Intestinal Progenitors Contributes to Colon Regeneration after Injury
Robert P. Fordham et al.
CELL STEM CELL (2013)
Cytosystems dynamics in self-organization of tissue architecture
Yoshiki Sasai
NATURE (2013)
A functional CFTR assay using primary cystic fibrosis intestinal organoids
Johanna F. Dekkers et al.
NATURE MEDICINE (2013)
Near-infrared fluorescent proteins for multicolor in vivo imaging
Daria M. Shcherbakova et al.
NATURE METHODS (2013)
Buckling of a growing tissue and the emergence of two-dimensional patterns
M. R. Nelson et al.
MATHEMATICAL BIOSCIENCES (2013)
In vitro expansion and genetic modification of gastrointestinal stem cells in spheroid culture
Hiroyuki Miyoshi et al.
NATURE PROTOCOLS (2013)
Generation of BAC Transgenic Epithelial Organoids
Gerald Schwank et al.
PLOS ONE (2013)
Growing Self-Organizing Mini-Guts from a Single Intestinal Stem Cell: Mechanism and Applications
Toshiro Sato et al.
SCIENCE (2013)
Identification of Lgr5-Independent Spheroid-Generating Progenitors of the Mouse Fetal Intestinal Epithelium
Roxana C. Mustata et al.
CELL REPORTS (2013)
On the biomechanics of stem cell niche formation in the gut - modelling growing organoids
Peter Buske et al.
FEBS JOURNAL (2012)
Redundant Sources of Wnt Regulate Intestinal Stem Cells and Promote Formation of Paneth Cells
Henner F. Farin et al.
GASTROENTEROLOGY (2012)
Crowding induces live cell extrusion to maintain homeostatic cell numbers in epithelia
George T. Eisenhoffer et al.
NATURE (2012)
Fiji: an open-source platform for biological-image analysis
Johannes Schindelin et al.
NATURE METHODS (2012)
A Two-Dimensional Model of the Colonic Crypt Accounting for the Role of the Basement Membrane and Pericryptal Fibroblast Sheath
Sara-Jane Dunn et al.
PLOS COMPUTATIONAL BIOLOGY (2012)
Strategies for Homeostatic Stem Cell Self-Renewal in Adult Tissues
Benjamin D. Simons et al.
CELL (2011)
Long-term Expansion of Epithelial Organoids From Human Colon, Adenoma, Adenocarcinoma, and Barrett's Epithelium
Toshiro Sato et al.
GASTROENTEROLOGY (2011)
A Closed-Form Approximation of the Exact Unbiased Inverse of the Anscombe Variance-Stabilizing Transformation
Markku Makitalo et al.
IEEE TRANSACTIONS ON IMAGE PROCESSING (2011)
Paneth cells constitute the niche for Lgr5 stem cells in intestinal crypts
Toshiro Sato et al.
NATURE (2011)
A reserve stem cell population in small intestine renders Lgr5-positive cells dispensable
Hua Tian et al.
NATURE (2011)
Instabilities of Monolayered Epithelia: Shape and Structure of Villi and Crypts
E. Hannezo et al.
PHYSICAL REVIEW LETTERS (2011)
Intestinal Crypt Homeostasis Results from Neutral Competition between Symmetrically Dividing Lgr5 Stem Cells
Hugo J. Snippert et al.
CELL (2010)
Spindle Orientation Bias in Gut Epithelial Stem Cell Compartments Is Lost in Precancerous Tissue
Aaron J. Quyn et al.
CELL STEM CELL (2010)
Intestinal Stem Cell Replacement Follows a Pattern of Neutral Drift
Carlos Lopez-Garcia et al.
SCIENCE (2010)
Ion transport in the intestine
Pawel R. Kiela et al.
CURRENT OPINION IN GASTROENTEROLOGY (2009)
Single Lgr5 stem cells build crypt-villus structures in vitro without a mesenchymal niche
Toshiro Sato et al.
NATURE (2009)
The dilated bowel: a liability and an asset
A. Bianchi et al.
SEMINARS IN PEDIATRIC SURGERY (2009)
Cdc42 controls spindle orientation to position the apical surface during epithelial morphogenesis
Aron B. Jaffe et al.
JOURNAL OF CELL BIOLOGY (2008)
Crypt fission peaks early during infancy and crypt hyperplasia broadly peaks during infancy and childhood in the small intestine of humans
Adrian G. Cummins et al.
JOURNAL OF PEDIATRIC GASTROENTEROLOGY AND NUTRITION (2008)
Expansion of intestinal stem cells associated with long-term adaptation following ileocecal resection in mice
Christopher M. Dekaney et al.
AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY (2007)
Identification of stem cells in small intestine and colon by marker gene Lgr5
Nick Barker et al.
NATURE (2007)
Image denoising by sparse 3-D transform-domain collaborative filtering
Kostadin Dabov et al.
IEEE TRANSACTIONS ON IMAGE PROCESSING (2007)
Three-dimensional culture models of normal and malignant breast epithelial cells
Genee Y. Lee et al.
NATURE METHODS (2007)
slc26a3 (dra)-deficient mice display chloride-losing diarrhea, enhanced colonic proliferation, and distinct up-regulation of ion transporters in the colon
Clifford W. Schweinfest et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2006)
The stem-cell niche as an entity of action
DT Scadden
NATURE (2006)
Serrated polyps of the large intestine - A morphologic and molecular review of an evolving concept
DC Snover et al.
AMERICAN JOURNAL OF CLINICAL PATHOLOGY (2005)
Morphogenesis and oncogenesis of MCF-10A mammary epithelial acini grown in three-dimensional basement membrane cultures
J Debnath et al.
METHODS (2003)
β-catenin and TCF mediate cell positioning in the intestinal epithelium by controlling the expression of EphB/EphrinB
E Batlle et al.
CELL (2002)
Gastrointestinal cell proliferation and crypt fission are separate but complementary means of increasing tissue mass following infusion of epidermal growth factor in rats
J Berlanga-Acosta et al.
GUT (2001)
Buckling instabilities of one-layered growing tissues
D Drasdo
PHYSICAL REVIEW LETTERS (2000)