Plating human iPSC lines on micropatterned substrates reveals role for ITGB1 nsSNV in endoderm formation

[1]  Michael J. Gloudemans,et al.  Identification of rare and common regulatory variants in pluripotent cells using population-scale transcriptomics , 2021, Nature Genetics.

[2]  Anne E Carpenter,et al.  Image-based profiling for drug discovery: due for a machine-learning upgrade? , 2020, Nature reviews. Drug discovery.

[3]  S. Yamanaka.  Pluripotent Stem Cell-Based Cell Therapy-Promise and Challenges. , 2020, Cell stem cell.

[4]  M. Kampmann.  CRISPR-based functional genomics for neurological disease , 2020, Nature Reviews Neurology.

[5]  A. van Oudenaarden,et al.  An in vitro model of early anteroposterior organization during human development , 2020, Nature.

[6]  Daniel J. Gaffney,et al.  Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation , 2020, Nature Genetics.

[7]  Eileen Gentleman,et al.  An integrated pipeline for high-throughput screening and profiling of spheroids using simple live image analysis of frame to frame variations , 2020, Methods.

[8]  A. Goate,et al.  Interpretation of risk loci from genome-wide association studies of Alzheimer's disease , 2020, The Lancet Neurology.

[9]  Gerrit Hilgen,et al.  Human iPSC differentiation to retinal organoids in response to IGF1 and BMP4 activation is line‐ and method‐dependent , 2019, Stem cells.

[10]  Laura Prochazka,et al.  High-throughput micropatterning platform reveals Nodal-dependent bisection of peri-gastrulation–associated versus preneurulation-associated fate patterning , 2019, PLoS biology.

[11]  Davis J. McCarthy,et al.  Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression , 2019, bioRxiv.

[12]  R. Durbin,et al.  Identifying Extrinsic versus Intrinsic Drivers of Variation in Cell Behavior in Human iPSC Lines from Healthy Donors , 2019, Cell reports.

[13]  M. Bonder,et al.  Population-scale proteome variation in human induced pluripotent stem cells , 2018, bioRxiv.

[14]  M. Zernicka-Goetz,et al.  Self-assembly of embryonic and two extra-embryonic stem cell types into gastrulating embryo-like structures , 2018, Nature Cell Biology.

[15]  K. Sermon,et al.  Genetic and epigenetic factors which modulate differentiation propensity in human pluripotent stem cells. , 2018, Human reproduction update.

[16]  Nazish Sayed,et al.  Modeling human diseases with induced pluripotent stem cells: from 2D to 3D and beyond , 2018, Development.

[17]  Joel Ostblom,et al.  A stepwise model of reaction-diffusion and positional information governs self-organized human peri-gastrulation-like patterning , 2017, Development.

[18]  L. Vallier,et al.  Variability of human pluripotent stem cell lines. , 2017, Current opinion in genetics & development.

[19]  Stephan J Sanders,et al.  Whole genome sequencing in psychiatric disorders: the WGSPD consortium , 2017, bioRxiv.

[20]  Davis J. McCarthy,et al.  Common genetic variation drives molecular heterogeneity in human iPSCs , 2017, Nature.

[21]  Christos Kyprianou,et al.  Assembly of embryonic and extraembryonic stem cells to mimic embryogenesis in vitro , 2017, Science.

[22]  Gaurav Pandey,et al.  Analysis of Transcriptional Variability in a Large Human iPSC Library Reveals Genetic and Non-genetic Determinants of Heterogeneity. , 2017, Cell stem cell.

[23]  Rahul C. Deo,et al.  Induced Pluripotent Stem Cell Differentiation Enables Functional Validation of GWAS Variants in Metabolic Disease. , 2017, Cell stem cell.

[24]  Christopher M. DeBoever,et al.  iPSCORE: A Resource of 222 iPSC Lines Enabling Functional Characterization of Genetic Variation across a Variety of Cell Types , 2017, Stem cell reports.

[25]  Takashi Daimon,et al.  Autologous Induced Stem‐Cell–Derived Retinal Cells for Macular Degeneration: Brief Report , 2017, The New England journal of medicine.

[26]  Daniel J. Gaffney,et al.  Molecular and functional variation in iPSC-derived sensory neurons , 2017, bioRxiv.

[27]  A. Brivanlou,et al.  A Balance between Secreted Inhibitors and Edge Sensing Controls Gastruloid Self-Organization. , 2016, Developmental cell.

[28]  Nick Barker,et al.  Organoids as an in vitro model of human development and disease , 2016, Nature Cell Biology.

[29]  J. Kettunen,et al.  Genetic Variability Overrides the Impact of Parental Cell Type and Determines iPSC Differentiation Potential , 2016, Stem cell reports.

[30]  J. Pritchard,et al.  Genetic Variation, Not Cell Type of Origin, Underlies the Majority of Identifiable Regulatory Differences in iPSCs , 2016, PLoS genetics.

[31]  James Y. Zou.  Analysis of protein-coding genetic variation in 60,706 humans , 2015, Nature.

[32]  D. Melton,et al.  An improved ScoreCard to assess the differentiation potential of human pluripotent stem cells , 2015, Nature Biotechnology.

[33]  N. Benvenisty,et al.  TeratoScore: Assessing the Differentiation Potential of Human Pluripotent Stem Cells by Quantitative Expression Analysis of Teratomas , 2015, Stem cell reports.

[34]  Eric D. Siggia,et al.  A method to recapitulate early embryonic spatial patterning in human embryonic stem cells , 2014, Nature Methods.

[35]  Daniel J. Gaffney,et al.  Genetic Background Drives Transcriptional Variation in Human Induced Pluripotent Stem Cells , 2014, PLoS genetics.

[36]  Douglas E. V. Pires,et al.  DUET: a server for predicting effects of mutations on protein stability using an integrated computational approach , 2014, Nucleic Acids Res..

[37]  R. Shawky.  Reduced penetrance in human inherited disease , 2014 .

[38]  T. Ichisaka,et al.  Differentiation-defective phenotypes revealed by large-scale analyses of human pluripotent stem cells , 2013, Proceedings of the National Academy of Sciences.

[39]  L. Sullivan,et al.  Clonal genetic and hematopoietic heterogeneity among human-induced pluripotent stem cell lines. , 2013, Blood.

[40]  N. Bursac,et al.  WNT3 Is a Biomarker Capable of Predicting the Definitive Endoderm Differentiation Potential of hESCs , 2013, Stem cell reports.

[41]  Y. Matsumoto,et al.  Genetically Matched Human iPS Cells Reveal that Propensity for Cartilage and Bone Differentiation Differs with Clones, not Cell Type of Origin , 2013, PloS one.

[42]  Kenny Q. Ye,et al.  An integrated map of genetic variation from 1,092 human genomes , 2012, Nature.

[43]  Takashi Aoi,et al.  Donor-dependent variations in hepatic differentiation from human-induced pluripotent stem cells , 2012, Proceedings of the National Academy of Sciences.

[44]  A. Gonzalez-Perez,et al.  Improving the assessment of the outcome of nonsynonymous SNVs with a consensus deleteriousness score, Condel. , 2011, American journal of human genetics.

[45]  Hynek Wichterle,et al.  A functionally characterized test set of human induced pluripotent stem cells , 2011, Nature Biotechnology.

[46]  Bernhard M. Schuldt,et al.  A bioinformatic assay for pluripotency in human cells , 2011, Nature Methods.

[47]  Michael J. Ziller,et al.  Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines , 2011, Cell.

[48]  James A Thomson,et al.  Neural differentiation of human induced pluripotent stem cells follows developmental principles but with variable potency , 2010, Proceedings of the National Academy of Sciences.

[49]  M. Humphries,et al.  Anti-integrin monoclonal antibodies , 2009, Journal of Cell Science.

[50]  Elizabeth J. Robertson,et al.  Making a commitment: cell lineage allocation and axis patterning in the early mouse embryo , 2009, Nature Reviews Molecular Cell Biology.

[51]  George Q. Daley,et al.  Disease-Specific Induced Pluripotent Stem Cells , 2008, Cell.

[52]  T. Ichisaka,et al.  Induction of Pluripotent Stem Cells from Adult Human Fibroblasts by Defined Factors , 2007, Cell.

[53]  R. Schüle,et al.  The LIM-only Proteins FHL2 and FHL3 Interact with α- and β-Subunits of the Muscle α7β1 Integrin Receptor* , 2004, Journal of Biological Chemistry.

[54]  R. Schüle,et al.  Focal adhesion kinase interacts with the transcriptional coactivator FHL2 and both are overexpressed in epithelial ovarian cancer. , 2004, Anticancer research.

[55]  F. Watt,et al.  A role for mitogen-activated protein kinase activation by integrins in the pathogenesis of psoriasis. , 2001, The Journal of clinical investigation.

[56]  F. Watt,et al.  Signaling via beta1 integrins and mitogen-activated protein kinase determines human epidermal stem cell fate in vitro. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[57]  D. DeSimone,et al.  Integrin-dependent adhesive activity is spatially controlled by inductive signals at gastrulation. , 1996, Development.

[58]  F M Watt,et al.  Regulation of development and differentiation by the extracellular matrix. , 1993, Development.

[59]  B. Thiers.  Induction of Pluripotent Stem Cells from Adult Human Fibroblasts by Defined Factors , 2008 .

[60]  R. Schüle,et al.  The LIM-only proteins FHL2 and FHL3 interact with alpha- and beta-subunits of the muscle alpha7beta1 integrin receptor. , 2004, The Journal of biological chemistry.