Integrating genetics with single-cell multiomic measurements across disease states identifies mechanisms of beta cell dysfunction in type 2 diabetes
暂无分享,去创建一个
Kyle J. Gaulton | P. MacDonald | Y. Hang | Seung K. Kim | S. Preissl | X. Dai | M. Sander | Joshua Chiou | F. Kandeel | Mei-Lin Okino | Jee Yun Han | Gaowei Wang | Theodore Dos Santos | Nikita Kadakia | Chun Zeng | J. Camunas-Soler | Ileana Matta | C. Ellis | K. Gaulton | Michael Miller | Medhavi Mallick | Elisha Beebe | Theodore dos Santos
[1] K. Kaestner,et al. Understanding islet dysfunction in type 2 diabetes through multidimensional pancreatic phenotyping: The Human Pancreas Analysis Program. , 2022, Cell metabolism.
[2] Robert C. Jones,et al. Heterogenous impairment of α cell function in type 2 diabetes is linked to cell maturation state. , 2022, Cell metabolism.
[3] Kyle J. Gaulton,et al. Multi-ancestry genetic study of type 2 diabetes highlights the power of diverse populations for discovery and translation , 2020, Nature Genetics.
[4] R. Benninger,et al. The physiological role of β-cell heterogeneity in pancreatic islet function , 2021, Nature Reviews Endocrinology.
[5] Jason M. Torres,et al. TIGER: The gene expression regulatory variation landscape of human pancreatic islets , 2021, bioRxiv.
[6] Xianjun Zhu,et al. The phosphatidylserine flippase β-subunit Tmem30a is essential for normal insulin maturation and secretion , 2021, Molecular Therapy.
[7] Kyle J. Gaulton,et al. Single cell chromatin accessibility identifies pancreatic islet cell type- and state-specific regulatory programs of diabetes risk , 2021, Nature Genetics.
[8] E. Bonifacio,et al. Multi-omics profiling of living human pancreatic islet donors reveals heterogeneous beta cell trajectories toward type 2 diabetes , 2020, bioRxiv.
[9] Brian E. Cade,et al. Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program , 2019, Nature.
[10] Ken Munene Nkonge,et al. The epidemiology, molecular pathogenesis, diagnosis, and treatment of maturity-onset diabetes of the young (MODY) , 2020, Clinical Diabetes and Endocrinology.
[11] D. Eizirik,et al. Pancreatic β-cells in type 1 and type 2 diabetes mellitus: different pathways to failure , 2020, Nature Reviews Endocrinology.
[12] S. Quake,et al. Patch-Seq Links Single-Cell Transcriptomes to Human Islet Dysfunction in Diabetes. , 2020, Cell metabolism.
[13] J. Weitz,et al. Dysfunction of Persisting β Cells Is a Key Feature of Early Type 2 Diabetes Pathogenesis. , 2020, Cell reports.
[14] Phillip A. Richmond,et al. JASPAR 2020: update of the open-access database of transcription factor binding profiles , 2019, Nucleic Acids Res..
[15] M. Cnop,et al. Recent insights into mechanisms of β-cell lipo- and glucolipotoxicity in type 2 diabetes. , 2020, Journal of molecular biology.
[16] V. Fellman,et al. A sensitive assay for dNTPs based on long synthetic oligonucleotides, EvaGreen dye and inhibitor-resistant high-fidelity DNA polymerase , 2019, bioRxiv.
[17] Xiang-Dong Fu,et al. A tumorigenic index for quantitative analysis of liver cancer initiation and progression , 2019, Proceedings of the National Academy of Sciences.
[18] M. Huising,et al. Integrating the inputs that shape pancreatic islet hormone release , 2019, Nature Metabolism.
[19] Jason D. Buenrostro,et al. Inference and effects of barcode multiplets in droplet-based single-cell assays , 2019, Nature Communications.
[20] Yurong Xin,et al. Heterogeneity of human pancreatic β-cells , 2019, Molecular metabolism.
[21] A. Kundaje,et al. The ENCODE Blacklist: Identification of Problematic Regions of the Genome , 2019, Scientific Reports.
[22] Howard Y. Chang,et al. Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion , 2019, Nature Biotechnology.
[23] E. Pratt,et al. Regulation of cAMP accumulation and activity by distinct phosphodiesterase subtypes in INS-1 cells and human pancreatic β-cells , 2019, bioRxiv.
[24] Yan Li,et al. Single-Cell Heterogeneity Analysis and CRISPR Screen Identify Key β-Cell-Specific Disease Genes. , 2019, Cell reports.
[25] K. Kaestner,et al. Single-Cell RNA-Seq of the Pancreatic Islets--a Promise Not yet Fulfilled? , 2019, Cell metabolism.
[26] Vincent A. Traag,et al. From Louvain to Leiden: guaranteeing well-connected communities , 2018, Scientific Reports.
[27] Fan Zhang,et al. Fast, sensitive, and accurate integration of single cell data with Harmony , 2018, bioRxiv.
[28] Andrew C. Adey,et al. Cicero Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin Accessibility Data. , 2018, Molecular cell.
[29] C. Y. Chow,et al. Baldspot/ELOVL6 is a conserved modifier of disease and the ER stress response , 2018, bioRxiv.
[30] Jinrang Kim,et al. Pseudotime Ordering of Single Human β-Cells Reveals States of Insulin Production and Unfolded Protein Response , 2018, Diabetes.
[31] Fabian J Theis,et al. SCANPY: large-scale single-cell gene expression data analysis , 2018, Genome Biology.
[32] Kyle J. Gaulton,et al. Mechanisms of Type 2 Diabetes Risk Loci , 2017, Current Diabetes Reports.
[33] William J. Greenleaf,et al. chromVAR: Inferring transcription factor-associated accessibility from single-cell epigenomic data , 2017, Nature Methods.
[34] C. Cohrs,et al. Human beta cell mass and function in diabetes: Recent advances in knowledge and technologies to understand disease pathogenesis , 2017, Molecular metabolism.
[35] Anna B. Osipovich,et al. Chronic β-Cell Depolarization Impairs β-Cell Identity by Disrupting a Network of Ca2+-Regulated Genes , 2017, Diabetes.
[36] M. Akiyama,et al. Clock Gene Dysregulation Induced by Chronic ER Stress Disrupts β-cell Function , 2017, EBioMedicine.
[37] J. George,et al. Single-cell transcriptomes identify human islet cell signatures and reveal cell-type–specific expression changes in type 2 diabetes , 2017, Genome research.
[38] D. M. Smith,et al. Single-Cell Transcriptome Profiling of Human Pancreatic Islets in Health and Type 2 Diabetes , 2016, Cell metabolism.
[39] A. Murphy,et al. RNA Sequencing of Single Human Islet Cells Reveals Type 2 Diabetes Genes. , 2016, Cell metabolism.
[40] Alan M. Kwong,et al. Next-generation genotype imputation service and methods , 2016, Nature Genetics.
[41] Jonathan Schug,et al. Human islets contain four distinct subtypes of β cells , 2016, Nature Communications.
[42] Andrew D. Rouillard,et al. Enrichr: a comprehensive gene set enrichment analysis web server 2016 update , 2016, Nucleic Acids Res..
[43] Tianqi Chen,et al. XGBoost: A Scalable Tree Boosting System , 2016, KDD.
[44] O. Brady,et al. TFEB and TFE3 are novel components of the integrated stress response , 2016, The EMBO journal.
[45] James D. Johnson,et al. Reduced Insulin Production Relieves Endoplasmic Reticulum Stress and Induces β Cell Proliferation. , 2016, Cell metabolism.
[46] Jonathan K. Pritchard,et al. WASP: allele-specific software for robust molecular quantitative trait locus discovery , 2015, Nature Methods.
[47] W. Huber,et al. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.
[48] L. Groop,et al. Global genomic and transcriptomic analysis of human pancreatic islets reveals novel genes influencing glucose metabolism , 2014, Proceedings of the National Academy of Sciences.
[49] Samantha A. Morris,et al. CellNet: Network Biology Applied to Stem Cell Engineering , 2014, Cell.
[50] H. Sone,et al. Ablation of Elovl6 protects pancreatic islets from high-fat diet-induced impairment of insulin secretion. , 2014, Biochemical and biophysical research communications.
[51] S. Kahn,et al. Pathophysiology and treatment of type 2 diabetes: perspectives on the past, present, and future , 2014, The Lancet.
[52] Data production leads,et al. An integrated encyclopedia of DNA elements in the human genome , 2012 .
[53] ENCODEConsortium,et al. An Integrated Encyclopedia of DNA Elements in the Human Genome , 2012, Nature.
[54] S. Ellard,et al. SLC2A2 mutations can cause neonatal diabetes, suggesting GLUT2 may have a role in human insulin secretion , 2012, Diabetologia.
[55] R. Chow,et al. Inositol 1,4,5-trisphosphate receptor 1 mutation perturbs glucose homeostasis and enhances susceptibility to diet-induced diabetes. , 2011, The Journal of endocrinology.
[56] M. Nawijn,et al. Pim3 negatively regulates glucose-stimulated insulin secretion , 2010, Islets.
[57] C. Glass,et al. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. , 2010, Molecular cell.
[58] Gonçalo R. Abecasis,et al. The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..
[59] T. Berney,et al. Insulin secretion from human beta cells is heterogeneous and dependent on cell-to-cell contacts , 2008, Diabetologia.
[60] J. Bryan,et al. ABCC8 and ABCC9: ABC transporters that regulate K+ channels , 2007, Pflügers Archiv - European Journal of Physiology.
[61] R. Tibshirani,et al. On testing the significance of sets of genes , 2006, math/0610667.
[62] Jun Song,et al. CEAS: cis-regulatory element annotation system , 2006, Nucleic Acids Res..
[63] Terrence S. Furey,et al. The UCSC Genome Browser Database: update 2006 , 2005, Nucleic Acids Res..
[64] M. German,et al. Genetic analysis reveals that PAX6 is required for normal transcription of pancreatic hormone genes and islet development. , 1997, Genes & development.