Single-nucleus chromatin accessibility profiling highlights regulatory mechanisms of coronary artery disease risk
出版年份 2022 全文链接
标题
Single-nucleus chromatin accessibility profiling highlights regulatory mechanisms of coronary artery disease risk
作者
关键词
-
出版物
NATURE GENETICS
Volume -, Issue -, Pages -
出版商
Springer Science and Business Media LLC
发表日期
2022-05-20
DOI
10.1038/s41588-022-01069-0
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注意：仅列出部分参考文献，下载原文获取全部文献信息。- ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis
- (2021) Jeffrey M. Granja et al. NATURE GENETICS
- Prdm16 Supports Arterial Flow Recovery by Maintaining Endothelial Function
- (2021) Sander Craps et al. CIRCULATION RESEARCH
- Interpreting type 1 diabetes risk with genetics and single-cell epigenomics
- (2021) Joshua Chiou et al. NATURE
- Genome-wide enhancer maps link risk variants to disease genes
- (2021) Joseph Nasser et al. NATURE
- Single-cell chromatin accessibility identifies pancreatic islet cell type– and state-specific regulatory programs of diabetes risk
- (2021) Joshua Chiou et al. NATURE GENETICS
- Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney
- (2021) Yoshiharu Muto et al. Nature Communications
- Cardiac cell type–specific gene regulatory programs and disease risk association
- (2021) James D. Hocker et al. Science Advances
- Genetic effects on liver chromatin accessibility identify disease regulatory variants
- (2021) Kevin W. Currin et al. AMERICAN JOURNAL OF HUMAN GENETICS
- Single-Cell Epigenomics and Functional Fine-Mapping of Atherosclerosis GWAS Loci
- (2021) Tiit Örd et al. CIRCULATION RESEARCH
- Single-nucleus chromatin accessibility and transcriptomic characterization of Alzheimer’s disease
- (2021) Samuel Morabito et al. NATURE GENETICS
- Single-cell epigenomics reveals mechanisms of human cortical development
- (2021) Ryan S. Ziffra et al. NATURE
- Systems Genetics in Human Endothelial Cells Identifies Non-coding Variants Modifying Enhancers, Expression, and Complex Disease Traits
- (2020) Lindsey K. Stolze et al. AMERICAN JOURNAL OF HUMAN GENETICS
- The Stem Cell Pluripotency Genes Klf4 and Oct4 Regulate Complex SMC Phenotypic Changes Critical in Late-Stage Atherosclerotic Lesion Pathogenesis
- (2020) Gabriel F. Alencar et al. CIRCULATION
- Clonally expanding smooth muscle cells promote atherosclerosis by escaping efferocytosis and activating the complement cascade
- (2020) Ying Wang et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Activation of JUN in fibroblasts promotes pro-fibrotic programme and modulates protective immunity
- (2020) Lu Cui et al. Nature Communications
- PRDM16 Upregulation Induced by MicroRNA-448 Inhibition Alleviates Atherosclerosis via the TGF-β Signaling Pathway Inactivation
- (2020) Dongxing Liu et al. Frontiers in Physiology
- Chromatin Potential Identified by Shared Single-Cell Profiling of RNA and Chromatin
- (2020) Sai Ma et al. CELL
- Single-Cell Genomics Reveals a Novel Cell State During Smooth Muscle Cell Phenotypic Switching and Potential Therapeutic Targets for Atherosclerosis in Mouse and Human
- (2020) Huize Pan et al. CIRCULATION
- Microanatomy of the Human Atherosclerotic Plaque by Single-Cell Transcriptomics
- (2020) Marie AC Depuydt et al. CIRCULATION RESEARCH
- CDC42EP5/BORG3 modulates SEPT9 to promote actomyosin function, migration, and invasion
- (2020) Aaron J. Farrugia et al. JOURNAL OF CELL BIOLOGY
- Population-specific and trans-ancestry genome-wide analyses identify distinct and shared genetic risk loci for coronary artery disease
- (2020) Satoshi Koyama et al. NATURE GENETICS
- Single-cell epigenomic analyses implicate candidate causal variants at inherited risk loci for Alzheimer’s and Parkinson’s diseases
- (2020) M. Ryan Corces et al. NATURE GENETICS
- Qtlizer: comprehensive QTL annotation of GWAS results
- (2020) Matthias Munz et al. Scientific Reports
- Genome-wide meta-analysis identifies new loci and functional pathways influencing Alzheimer’s disease risk
- (2019) Iris E. Jansen et al. NATURE GENETICS
- Abundant associations with gene expression complicate GWAS follow-up
- (2019) Boxiang Liu et al. NATURE GENETICS
- GkmExplain: fast and accurate interpretation of nonlinear gapped k-mer SVMs
- (2019) Avanti Shrikumar et al. BIOINFORMATICS
- Comprehensive Integration of Single-Cell Data
- (2019) Tim Stuart et al. CELL
- The novel coronary artery disease risk gene JCAD/KIAA1462 promotes endothelial dysfunction and atherosclerosis
- (2019) Suowen Xu et al. EUROPEAN HEART JOURNAL
- Atheroprotective roles of smooth muscle cell phenotypic modulation and the TCF21 disease gene as revealed by single-cell analysis
- (2019) Robert C. Wirka et al. NATURE MEDICINE
- Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion
- (2019) Ansuman T. Satpathy et al. NATURE BIOTECHNOLOGY
- Landscape of stimulation-responsive chromatin across diverse human immune cells
- (2019) Diego Calderon et al. NATURE GENETICS
- Single-cell immune landscape of human atherosclerotic plaques
- (2019) Dawn M. Fernandez et al. NATURE MEDICINE
- Fast, sensitive and accurate integration of single-cell data with Harmony
- (2019) Ilya Korsunsky et al. NATURE METHODS
- Brain cell type–specific enhancer–promoter interactome maps and disease-risk association
- (2019) Alexi Nott et al. SCIENCE
- Coronary Disease-Associated Gene TCF21 Inhibits Smooth Muscle Cell Differentiation by Blocking the Myocardin-Serum Response Factor Pathway
- (2019) Manabu Nagao et al. CIRCULATION RESEARCH
- Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia
- (2019) Jeffrey M. Granja et al. NATURE BIOTECHNOLOGY
- Arid5a Regulation and the Roles of Arid5a in the Inflammatory Response and Disease
- (2019) Kishan Kumar Nyati et al. Frontiers in Immunology
- Single-cell ATAC-Seq in human pancreatic islets and deep learning upscaling of rare cells reveals cell-specific type 2 diabetes regulatory signatures
- (2019) Vivek Rai et al. Molecular Metabolism
- Endothelial–mesenchymal transition in atherosclerosis
- (2018) Celine Souilhol et al. CARDIOVASCULAR RESEARCH
- Single-Cell RNA-Seq Reveals the Transcriptional Landscape and Heterogeneity of Aortic Macrophages in Murine AtherosclerosisNovelty and Significance
- (2018) Clément Cochain et al. CIRCULATION RESEARCH
- Atlas of the Immune Cell Repertoire in Mouse Atherosclerosis Defined by Single-Cell RNA-Sequencing and Mass CytometryNovelty and Significance
- (2018) Holger Winkels et al. CIRCULATION RESEARCH
- Genetic determinants of co-accessible chromatin regions in activated T cells across humans
- (2018) Rachel E. Gate et al. NATURE GENETICS
- A One-Penny Imputed Genome from Next-Generation Reference Panels
- (2018) Brian L. Browning et al. AMERICAN JOURNAL OF HUMAN GENETICS
- Genetic Regulatory Mechanisms of Smooth Muscle Cells Map to Coronary Artery Disease Risk Loci
- (2018) Boxiang Liu et al. AMERICAN JOURNAL OF HUMAN GENETICS
- Type 2 Diabetes Associated Genetic Variants Regulate Chromatin Accessibility in Human Islets
- (2018) Shubham Khetan et al. DIABETES
- Joint profiling of chromatin accessibility and gene expression in thousands of single cells
- (2018) Junyue Cao et al. SCIENCE
- Evaluation of chromatin accessibility in prefrontal cortex of individuals with schizophrenia
- (2018) Julien Bryois et al. Nature Communications
- Trans-ethnic association study of blood pressure determinants in over 750,000 individuals
- (2018) Ayush Giri et al. NATURE GENETICS
- GWAS and colocalization analyses implicate carotid intima-media thickness and carotid plaque loci in cardiovascular outcomes
- (2018) Nora Franceschini et al. Nature Communications
- Functional regulatory mechanism of smooth muscle cell-restricted LMOD1 coronary artery disease locus
- (2018) Vivek Nanda et al. PLoS Genetics
- Monocyte-Macrophages and T Cells in Atherosclerosis
- (2017) Ira Tabas et al. IMMUNITY
- Association analyses based on false discovery rate implicate new loci for coronary artery disease
- (2017) Christopher P Nelson et al. NATURE GENETICS
- chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data
- (2017) Alicia N Schep et al. NATURE METHODS
- An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues
- (2017) M Ryan Corces et al. NATURE METHODS
- Identification of 64 Novel Genetic Loci Provides an Expanded View on the Genetic Architecture of Coronary Artery Disease
- (2017) Pim van der Harst et al. CIRCULATION RESEARCH
- LS-GKM: a new gkm-SVM for large-scale datasets
- (2016) Dongwon Lee BIOINFORMATICS
- Mergeomics: multidimensional data integration to identify pathogenic perturbations to biological systems
- (2016) Le Shu et al. BMC GENOMICS
- Runx2 deletion in smooth muscle cells inhibits vascular osteochondrogenesis and calcification but not atherosclerotic lesion formation
- (2016) Mu-En Lin et al. CARDIOVASCULAR RESEARCH
- Integrative functional genomics identifies regulatory mechanisms at coronary artery disease loci
- (2016) Clint L. Miller et al. Nature Communications
- Cross-Tissue Regulatory Gene Networks in Coronary Artery Disease
- (2016) Husain A. Talukdar et al. Cell Systems
- Runx2 Expression in Smooth Muscle Cells Is Required for Arterial Medial Calcification in Mice
- (2015) Mu-En Lin et al. AMERICAN JOURNAL OF PATHOLOGY
- Myocardial Infarction-Associated SNP at 6p24 Interferes With MEF2 Binding and Associates With PHACTR1 Expression Levels in Human Coronary Arteries
- (2015) M. Beaudoin et al. ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY
- Natural progression of atherosclerosis from pathologic intimal thickening to late fibroatheroma in human coronary arteries: A pathology study
- (2015) Fumiyuki Otsuka et al. ATHEROSCLEROSIS
- 9p21.3 Coronary Artery Disease Risk Variants Disrupt TEAD Transcription Factor–Dependent Transforming Growth Factor β Regulation of p16 Expression in Human Aortic Smooth Muscle CellsCLINICAL PERSPECTIVE
- (2015) Naif A. M. Almontashiri et al. CIRCULATION
- Single-cell chromatin accessibility reveals principles of regulatory variation
- (2015) Jason D. Buenrostro et al. NATURE
- A comprehensive 1000 Genomes–based genome-wide association meta-analysis of coronary artery disease
- (2015) Majid Nikpay et al. NATURE GENETICS
- Fine-mapping cellular QTLs with RASQUAL and ATAC-seq
- (2015) Natsuhiko Kumasaka et al. NATURE GENETICS
- A method to predict the impact of regulatory variants from DNA sequence
- (2015) Dongwon Lee et al. NATURE GENETICS
- LD Score regression distinguishes confounding from polygenicity in genome-wide association studies
- (2015) Brendan K Bulik-Sullivan et al. NATURE GENETICS
- The selection and function of cell type-specific enhancers
- (2015) Sven Heinz et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing
- (2015) D. A. Cusanovich et al. SCIENCE
- UK Biobank: An Open Access Resource for Identifying the Causes of a Wide Range of Complex Diseases of Middle and Old Age
- (2015) Cathie Sudlow et al. PLOS MEDICINE
- Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures
- (2014) D. H. Phanstiel et al. BIOINFORMATICS
- Vasa Vasorum in Normal and Diseased Arteries
- (2014) Mary Jo Mulligan-Kehoe et al. CIRCULATION
- Enhanced Regulatory Sequence Prediction Using Gapped k-mer Features
- (2014) Mahmoud Ghandi et al. PLoS Computational Biology
- Beyond GWASs: Illuminating the Dark Road from Association to Function
- (2013) Stacey L. Edwards et al. AMERICAN JOURNAL OF HUMAN GENETICS
- featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
- (2013) Y. Liao et al. BIOINFORMATICS
- Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
- (2013) Jason D Buenrostro et al. NATURE METHODS
- BEDOPS: high-performance genomic feature operations
- (2012) Shane Neph et al. BIOINFORMATICS
- Systematic Localization of Common Disease-Associated Variation in Regulatory DNA
- (2012) M. T. Maurano et al. SCIENCE
- The variant call format and VCFtools
- (2011) P. Danecek et al. BIOINFORMATICS
- Regulation of endothelial cell development by ETS transcription factors
- (2011) Stryder M. Meadows et al. SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities
- (2010) Sven Heinz et al. MOLECULAR CELL
- GREAT improves functional interpretation of cis-regulatory regions
- (2010) Cory Y McLean et al. NATURE BIOTECHNOLOGY
- Inferring Regulatory Networks from Expression Data Using Tree-Based Methods
- (2010) Vân Anh Huynh-Thu et al. PLoS One
- Indispensable Role of the Runx1-Cbfβ Transcription Complex for In Vivo-Suppressive Function of FoxP3+ Regulatory T Cells
- (2009) Akihiko Kitoh et al. IMMUNITY
- Initiation of myoblast to brown fat switch by a PRDM16–C/EBP-β transcriptional complex
- (2009) Shingo Kajimura et al. NATURE
- T-box 2, a mediator of Bmp-Smad signaling, induced hyaluronan synthase 2 and Tgf 2 expression and endocardial cushion formation
- (2009) M. Shirai et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- WGCNA: an R package for weighted correlation network analysis
- (2008) Peter Langfelder et al. BMC BIOINFORMATICS
- SKI and MEL1 Cooperate to Inhibit Transforming Growth Factor-β Signal in Gastric Cancer Cells
- (2008) Mami Takahata et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- PRDM16 controls a brown fat/skeletal muscle switch
- (2008) Patrick Seale et al. NATURE
- Model-based Analysis of ChIP-Seq (MACS)
- (2008) Yong Zhang et al. GENOME BIOLOGY
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