Single-cell RNA sequencing to identify cellular heterogeneity and targets in cardiovascular diseases: from bench to bedside

[1]  J. Kovacic,et al.  Endothelial to Mesenchymal Transition in Health and Disease. , 2022, Annual review of physiology.

[2]  Haiyun Wang,et al.  Bone marrow-derived naïve B lymphocytes improve heart function after myocardial infarction: a novel cardioprotective mechanism for empagliflozin , 2022, Basic Research in Cardiology.

[3]  Guoji Guo,et al.  Single-cell transcriptome reveals cellular hierarchies and guides p-EMT-targeted trial in skull base chordoma , 2022, Cell Discovery.

[4]  S. Epelman,et al.  Resident cardiac macrophages: Heterogeneity and function in health and disease. , 2022, Immunity.

[5]  Catherine L. Worth,et al.  Pathogenic variants damage cell composition and single cell transcription in cardiomyopathies , 2022, Science.

[6]  M. Dhodapkar,et al.  Changes in Bone Marrow Tumor and Immune Cells Correlate with Durability of Remissions Following BCMA CAR T Therapy in Myeloma. , 2022, Blood cancer discovery.

[7]  Shengshou Hu,et al.  Functional isolation, culture and cryopreservation of adult human primary cardiomyocytes , 2022, Signal Transduction and Targeted Therapy.

[8]  P. Ellinor,et al.  Single-nucleus profiling of human dilated and hypertrophic cardiomyopathy , 2022, Nature.

[9]  William A. Donald,et al.  Single-cell mass spectrometry. , 2022, Trends in biotechnology.

[10]  B. Molenaar,et al.  Single-cell transcriptomics provides insights into hypertrophic cardiomyopathy. , 2022, Cell reports.

[11]  Yun Zhang,et al.  An intersegmental single-cell profile reveals aortic heterogeneity and identifies a novel Malat1+ vascular smooth muscle subtype involved in abdominal aortic aneurysm formation , 2022, Signal Transduction and Targeted Therapy.

[12]  C. Danko,et al.  Cell type and gene expression deconvolution with BayesPrism enables Bayesian integrative analysis across bulk and single-cell RNA sequencing in oncology , 2022, Nature Cancer.

[13]  M. Krane,et al.  Uncovering the molecular identity of cardiosphere-derived cells (CDCs) by single-cell RNA sequencing , 2022, Basic Research in Cardiology.

[14]  T. Walther,et al.  A human cell atlas of the pressure-induced hypertrophic heart , 2022, Nature Cardiovascular Research.

[15]  Fabian J Theis,et al.  Spatial components of molecular tissue biology , 2022, Nature Biotechnology.

[16]  B. Becher,et al.  Three tissue resident macrophage subsets coexist across organs with conserved origins and life cycles , 2022, Science Immunology.

[17]  D. Weissman,et al.  CAR T cells produced in vivo to treat cardiac injury , 2022, Science.

[18]  T. Assimes,et al.  ZEB2 Shapes the Epigenetic Landscape of Atherosclerosis , 2022, Circulation.

[19]  OUP accepted manuscript , 2022, Cardiovascular Research.

[20]  L. Mao,et al.  An update on the phenotypic switching of vascular smooth muscle cells in the pathogenesis of atherosclerosis , 2021, Cellular and Molecular Life Sciences.

[21]  Yusu Gu,et al.  PRDM16 Is a Compact Myocardium-Enriched Transcription Factor Required to Maintain Compact Myocardial Cardiomyocyte Identity in Left Ventricle , 2021, Circulation.

[22]  Madhav Mantri,et al.  Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis , 2021, bioRxiv.

[23]  Shengshou Hu,et al.  Single-cell transcriptomic identified HIF1A as a target for attenuating acute rejection after heart transplantation , 2021, Basic Research in Cardiology.

[24]  Xiaomin Song,et al.  Single-Cell Transcriptome Profiles Reveal Fibrocytes as Potential Targets of Cell Therapies for Abdominal Aortic Aneurysm , 2021, Frontiers in Cardiovascular Medicine.

[25]  G. Heusch,et al.  A fresh look at coronary microembolization , 2021, Nature Reviews Cardiology.

[26]  M. Knoll,et al.  C-MORE: A high-content single-cell morphology recognition methodology for liquid biopsies toward personalized cardiovascular medicine , 2021, Cell Reports Medicine.

[27]  Boxiang Liu,et al.  Analysis and Visualization of Spatial Transcriptomic Data , 2021, Frontiers in Genetics.

[28]  Shengshou Hu,et al.  Resolving the intertwining of inflammation and fibrosis in human heart failure at single-cell level , 2021, Basic Research in Cardiology.

[29]  M. Goumans,et al.  Epicardial differentiation drives fibro-fatty remodeling in arrhythmogenic cardiomyopathy , 2021, Science Translational Medicine.

[30]  Andrew C. Adey,et al.  Identifying phenotype-associated subpopulations by integrating bulk and single-cell sequencing data , 2021, Nature Biotechnology.

[31]  V. de Waard,et al.  Six Shades of Vascular Smooth Muscle Cells Illuminated by KLF4 (Krüppel-Like Factor 4) , 2021, Arteriosclerosis, thrombosis, and vascular biology.

[32]  S. Lemaire,et al.  New Technologies With Increased Precision Improve Understanding of Endothelial Cell Heterogeneity in Cardiovascular Health and Disease , 2021, Frontiers in Cell and Developmental Biology.

[33]  K. Ley,et al.  Heterogeneity of immune cells in human atherosclerosis revealed by scRNA-Seq. , 2021, Cardiovascular research.

[34]  C. Dinarello,et al.  Single-cell RNA-seq reveals a critical role of novel pro-inflammatory EndMT in mediating adverse remodeling in coronary artery–on–a–chip , 2021, Science Advances.

[35]  K. Red-Horse,et al.  Endocardial/endothelial angiocrines regulate cardiomyocyte development and maturation and induce features of ventricular non-compaction. , 2021, European heart journal.

[36]  C. Giannarelli,et al.  Immune cell profiling in atherosclerosis: role in research and precision medicine , 2021, Nature Reviews Cardiology.

[37]  M. Artyomov,et al.  Single Cell Transcriptomics Reveals Cell Type Specific Diversification in Human Heart Failure , 2021, bioRxiv.

[38]  Saptarsi M. Haldar,et al.  A transcriptional switch governs fibroblast activation in heart disease , 2021, Nature.

[39]  P. Kharchenko.  The triumphs and limitations of computational methods for scRNA-seq , 2021, Nature Methods.

[40]  P. Khavari,et al.  Integrating single-cell and spatial transcriptomics to elucidate intercellular tissue dynamics , 2021, Nature Reviews Genetics.

[41]  E. Fisher,et al.  Fate and State of Vascular Smooth Muscle Cells in Atherosclerosis. , 2021, Circulation.

[42]  T. Lönnberg,et al.  Single-Cell Epigenomics and Functional Fine-Mapping of Atherosclerosis GWAS Loci , 2021, Circulation research.

[43]  M. Mayr,et al.  Fibroblast GATA-4 and GATA-6 promote myocardial adaptation to pressure overload by enhancing cardiac angiogenesis , 2021, Basic Research in Cardiology.

[44]  K. Suszták,et al.  How to Get Started with Single Cell RNA Sequencing Data Analysis , 2021, Journal of the American Society of Nephrology : JASN.

[45]  Xiumeng Hua,et al.  Single-Cell Transcriptomic Atlas of Different Human Cardiac Arteries Identifies Cell Types Associated With Vascular Physiology , 2021, Arteriosclerosis, thrombosis, and vascular biology.

[46]  M. Bennett,et al.  Vascular smooth muscle cells in atherosclerosis:Time for a reassessment. , 2021, Cardiovascular research.

[47]  M. Gladka,et al.  Single-cell transcriptomics following ischemic injury identifies a role for B2M in cardiac repair , 2021, Communications biology.

[48]  Zhigang Xue,et al.  Cellular and molecular landscape of mammalian sinoatrial node revealed by single-cell RNA sequencing , 2021, Nature communications.

[49]  Marcel H. Schulz,et al.  Single cell sequencing reveals endothelial plasticity with transient mesenchymal activation after myocardial infarction , 2020, Nature Communications.

[50]  J. H. Rudd,et al.  Regulatory T-Cell Response to Low-Dose Interleukin-2 in Ischemic Heart Disease. , 2021, NEJM evidence.

[51]  S. Tu,et al.  Challenges and Clinical Strategies of CAR T-Cell Therapy for Acute Lymphoblastic Leukemia: Overview and Developments , 2021, Frontiers in Immunology.

[52]  Junedh M. Amrute,et al.  Spatial multi-omic map of human myocardial infarction , 2020, Nature.

[53]  Christopher M Rose,et al.  Defining the carrier proteome limit for single-cell proteomics , 2020, Nature methods.

[54]  Tallulah S Andrews,et al.  Tutorial: guidelines for the computational analysis of single-cell RNA sequencing data , 2020, Nature Protocols.

[55]  C. Krstevski,et al.  New perspectives of the cardiac cellular landscape: mapping cellular mediators of cardiac fibrosis using single-cell transcriptomics. , 2020, Biochemical Society transactions.

[56]  Hannah A. Pliner,et al.  A human cell atlas of fetal gene expression , 2020, Science.

[57]  K. Wollert,et al.  Angiogenesis After Acute Myocardial Infarction. , 2020, Cardiovascular research.

[58]  J. Coselli,et al.  Single-Cell Transcriptome Analysis Reveals Dynamic Cell Populations and Differential Gene Expression Patterns in Control and Aneurysmal Human Aortic Tissue , 2020, Circulation.

[59]  Michael R. Green,et al.  Characteristics of anti-CD19 CAR T cell infusion products associated with efficacy and toxicity in patients with large B cell lymphomas , 2020, Nature Medicine.

[60]  Yuzhi Lu,et al.  A Unique Population of Regulatory T Cells in Heart Potentiates Cardiac Protection from Myocardial Infarction. , 2020, Circulation.

[61]  R. Weissleder,et al.  The myeloid type I interferon response to myocardial infarction begins in bone marrow and is regulated by Nrf2-activated macrophages , 2020, Science Immunology.

[62]  Catherine L. Worth,et al.  Cells of the adult human heart , 2020, Nature.

[63]  Mingyao Li,et al.  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, Circulation.

[64]  David Lara-Astiaso,et al.  Single-Cell RNA-seq Analysis Reveals a Crucial Role for Collagen Triple Helix Repeat Containing 1 (CTHRC1) Cardiac Fibroblasts after Myocardial Infarction. , 2020, Circulation.

[65]  A. Saliba,et al.  Dynamics of Cardiac Neutrophil Diversity in Murine Myocardial Infarction , 2020, Circulation research.

[66]  I. Amit,et al.  Coupled scRNA-Seq and Intracellular Protein Activity Reveal an Immunosuppressive Role of TREM2 in Cancer , 2020, Cell.

[67]  T. Quertermous,et al.  Single-Cell Transcriptomic Profiling of Vascular Smooth Muscle Cell Phenotype Modulation in Marfan Syndrome Aortic Aneurysm , 2020, Arteriosclerosis, thrombosis, and vascular biology.

[68]  Corey M. Williams,et al.  Stem Cell Pluripotency Genes Klf4 and Oct4 Regulate Complex SMC Phenotypic Changes Critical in Late-Stage Atherosclerotic Lesion Pathogenesis , 2020, Circulation.

[69]  M. Cybulsky,et al.  Meta-Analysis of Leukocyte Diversity in Atherosclerotic Mouse Aortas , 2020, Circulation research.

[70]  H. Jo,et al.  Endothelial Reprogramming by Disturbed Flow Revealed by Single-Cell RNA and Chromatin Accessibility Study , 2020, bioRxiv.

[71]  T. Lassmann,et al.  Systematic assessment of tissue dissociation and storage biases in single-cell and single-nucleus RNA-seq workflows , 2020, Genome Biology.

[72]  T. Quertermous,et al.  Environment-Sensing Aryl Hydrocarbon Receptor Inhibits the Chondrogenic Fate of Modulated Smooth Muscle Cells in Atherosclerotic Lesions , 2020, Circulation.

[73]  Mingyao Li,et al.  Single-Cell RNA Sequencing to Dissect the Immunological Network of Autoimmune Myocarditis , 2020, Circulation.

[74]  X. Xie,et al.  Potent Neutralizing Antibodies against SARS-CoV-2 Identified by High-Throughput Single-Cell Sequencing of Convalescent Patients’ B Cells , 2020, Cell.

[75]  R. Sandberg,et al.  Single-cell RNA counting at allele and isoform resolution using Smart-seq3 , 2020, Nature Biotechnology.

[76]  Siddharth S. Dey,et al.  Simultaneous quantification of protein–DNA interactions and transcriptomes in single cells with scDam&T-seq , 2020, Nature Protocols.

[77]  V. Aboyans,et al.  ENDOTHELIAL FUNCTION IN CARDIOVASCULAR PRECISION MEDICINE : A POSITION PAPER ON BEHALF OF THE EUROPEAN SOCIETY OF CARDIOLOGY. , 2020, Cardiovascular research.

[78]  V. Aboyans,et al.  ENDOTHELIAL FUNCTION IN CARDIOVASCULAR PRECISION MEDICINE : A POSITION PAPER ON BEHALF OF THE EUROPEAN SOCIETY OF CARDIOLOGY. , 2020, Cardiovascular research.

[79]  Aviv Regev,et al.  Systematic comparison of single-cell and single-nucleus RNA-sequencing methods , 2020, Nature Biotechnology.

[80]  Oliver Stegle,et al.  Benchmarking single-cell RNA-sequencing protocols for cell atlas projects , 2020, Nature Biotechnology.

[81]  Ruth R. Montgomery,et al.  Smooth Muscle Cell Reprogramming in Aortic Aneurysms. , 2020, Cell stem cell.

[82]  Thomas M. Norman,et al.  Combinatorial single-cell CRISPR screens by direct guide RNA capture and targeted sequencing , 2020, Nature Biotechnology.

[83]  Yi Feng,et al.  The ACE2 expression in human heart indicates new potential mechanism of heart injury among patients infected with SARS-CoV-2 , 2020, Cardiovascular research.

[84]  Howard Y. Chang,et al.  Single-cell RNA sequencing in cardiovascular development, disease and medicine , 2020, Nature Reviews Cardiology.

[85]  S. Iliceto,et al.  Evidence From Family Studies for Autoimmunity in Arrhythmogenic Right Ventricular Cardiomyopathy , 2020, Circulation.

[86]  Daniel A. Skelly,et al.  Dynamic Interstitial Cell Response during Myocardial Infarction Predicts Resilience to Rupture in Genetically Diverse Mice , 2020, Cell reports.

[87]  Bingying Zhou,et al.  Single-Cell Reconstruction of Progression Trajectory Reveals Intervention Principles in Pathological Cardiac Hypertrophy , 2020, Circulation.

[88]  Mirjana Efremova,et al.  CellPhoneDB: inferring cell–cell communication from combined expression of multi-subunit ligand–receptor complexes , 2020, Nature Protocols.

[89]  M. Tallquist.  Cardiac Fibroblast Diversity. , 2020, Annual review of physiology.

[90]  S. Marchianò,et al.  Cardiomyocyte maturation: advances in knowledge and implications for regenerative medicine , 2020, Nature Reviews Cardiology.

[91]  H. Kong,et al.  Targeted therapy guided by single-cell transcriptomic analysis in drug-induced hypersensitivity syndrome: a case report , 2020, Nature Medicine.

[92]  K. Ardlie,et al.  Transcriptional and Cellular Diversity of the Human Heart , 2020, bioRxiv.

[93]  J. Coselli,et al.  Critical Role of Cytosolic DNA and Its Sensing Adaptor STING in Aortic Degeneration, Dissection, and Rupture , 2020, Circulation.

[94]  Shengshou Hu,et al.  Single-cell reconstruction of the adult human heart during heart failure and recovery reveals the cellular landscape underlying cardiac function , 2020, Nature Cell Biology.

[95]  T. Lassmann,et al.  Systematic assessment of tissue dissociation and storage biases in single-cell and single-nucleus RNA-seq workflows , 2019, Genome Biology.

[96]  C. Peano,et al.  Single Cell Sequencing of Mouse Heart Immune Infiltrate in Pressure Overload-Driven Heart Failure Reveals Extent of Immune Activation. , 2019, Circulation.

[97]  M. Connors,et al.  High-Throughput Mapping of B Cell Receptor Sequences to Antigen Specificity , 2019, Cell.

[98]  Daniel A. Skelly,et al.  High-Resolution Transcriptomic Profiling of the Heart During Chronic Stress Reveals Cellular Drivers of Cardiac Fibrosis and Hypertrophy , 2019, bioRxiv.

[99]  Nicolas F. Fernandez,et al.  Single-cell immune landscape of human atherosclerotic plaques , 2019, Nature Medicine.

[100]  Aviv Regev,et al.  A single-cell and single-nucleus RNA-Seq toolbox for fresh and frozen human tumors , 2019, Nature Medicine.

[101]  Matthew Miyamoto,et al.  Large particle fluorescence-activated cell sorting enables high quality single cell RNA-sequencing and functional analysis of adult cardiomyocytes , 2019, bioRxiv.

[102]  J. Epstein,et al.  Targeting Cardiac Fibrosis with Engineered T cells , 2019, Nature.

[103]  T. Braun,et al.  Mono- and multi-nucleated ventricular cardiomyocytes constitute a transcriptionally homogenous cell population , 2019, Basic Research in Cardiology.

[104]  M. Tessier-Lavigne,et al.  Transcriptomic Profiling of the Developing Cardiac Conduction System at Single-Cell Resolution. , 2019, Circulation research.

[105]  Clint L. Miller,et al.  Atheroprotective roles of smooth muscle cell phenotypic modulation and the TCF21 disease gene as revealed by single-cell analysis , 2019, Nature Medicine.

[106]  Richard S. Taylor,et al.  Single-cell transcriptome analyses reveal novel targets modulating cardiac neovascularization by resident endothelial cells following myocardial infarction , 2019, European heart journal.

[107]  Fabian J Theis,et al.  Current best practices in single‐cell RNA‐seq analysis: a tutorial , 2019, Molecular systems biology.

[108]  Matthew Miyamoto,et al.  Large particle fluorescence-activated cell sorting enables high quality single cell RNA-sequencing and functional analysis of adult cardiomyocytes , 2019, bioRxiv.

[109]  S. Allahverdian,et al.  Smooth Muscle Cells Contribute the Majority of Foam Cells in ApoE (Apolipoprotein E)-Deficient Mouse Atherosclerosis , 2019, Arteriosclerosis, thrombosis, and vascular biology.

[110]  Allon M Klein,et al.  Scrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data. , 2019, Cell systems.

[111]  Richard P Harvey,et al.  Single-cell expression profiling reveals dynamic flux of cardiac stromal, vascular and immune cells in health and injury , 2019, eLife.

[112]  Y. Gilad,et al.  Systematic Comparison of High-throughput Single-Cell and Single-Nucleus Transcriptomes during Cardiomyocyte Differentiation , 2019, Scientific Reports.

[113]  Sekar Kathiresan,et al.  Genetics of Common, Complex Coronary Artery Disease , 2019, Cell.

[114]  J. Goldberger,et al.  Autonomic Nervous System Dysfunction: JACC Focus Seminar. , 2019, Journal of the American College of Cardiology.

[115]  Kieran R. Campbell,et al.  clonealign: statistical integration of independent single-cell RNA and DNA sequencing data from human cancers , 2019, Genome Biology.

[116]  S. Ramsey,et al.  Single-cell analysis of fate-mapped macrophages reveals heterogeneity, including stem-like properties, during atherosclerosis progression and regression. , 2019, JCI insight.

[117]  H. Poh,et al.  Concurrent Single-Cell RNA and Targeted DNA Sequencing on an Automated Platform for Comeasurement of Genomic and Transcriptomic Signatures. , 2019, Clinical chemistry.

[118]  J. Kovacic,et al.  Endothelial to Mesenchymal Transition in Cardiovascular Disease: JACC State-of-the-Art Review. , 2019, Journal of the American College of Cardiology.

[119]  Haojia Wu,et al.  Advantages of Single-Nucleus over Single-Cell RNA Sequencing of Adult Kidney: Rare Cell Types and Novel Cell States Revealed in Fibrosis. , 2018, Journal of the American Society of Nephrology : JASN.

[120]  F. Ginhoux,et al.  Self-renewing resident cardiac macrophages limit adverse remodeling following myocardial infarction , 2018, Nature Immunology.

[121]  K. Moore,et al.  Macrophage-derived netrin-1 promotes abdominal aortic aneurysm formation by activating MMP3 in vascular smooth muscle cells , 2018, Nature Communications.

[122]  Maxim N. Artyomov,et al.  Transcriptome Analysis Reveals Nonfoamy Rather Than Foamy Plaque Macrophages Are Proinflammatory in Atherosclerotic Murine Models , 2018, Circulation research.

[123]  J. Healey,et al.  An autoantibody identifies arrhythmogenic right ventricular cardiomyopathy and participates in its pathogenesis , 2018, European heart journal.

[124]  Milena B. Furtado,et al.  The interstitium in cardiac repair: role of the immune–stromal cell interplay , 2018, Nature Reviews Cardiology.

[125]  C. Johnson,et al.  Global Atlas of Cardiovascular Disease 2000-2016: The Path to Prevention and Control. , 2018, Global heart.

[126]  J. T. Afshari,et al.  Macrophage plasticity, polarization, and function in health and disease , 2018, Journal of cellular physiology.

[127]  Jun Kit Wang,et al.  Hyaluronan Receptor LYVE‐1‐Expressing Macrophages Maintain Arterial Tone through Hyaluronan‐Mediated Regulation of Smooth Muscle Cell Collagen , 2018, Immunity.

[128]  A. van Oudenaarden,et al.  Single-Cell Transcriptomics Meets Lineage Tracing. , 2018, Cell stem cell.

[129]  Erik Sundström,et al.  RNA velocity of single cells , 2018, Nature.

[130]  A. van Oudenaarden,et al.  Single-Cell Sequencing of the Healthy and Diseased Heart Reveals Cytoskeleton-Associated Protein 4 as a New Modulator of Fibroblasts Activation , 2018, Circulation.

[131]  Rahul Sinha,et al.  Single-cell analysis of early progenitor cells that build coronary arteries , 2018, Nature.

[132]  Zev J. Gartner,et al.  DoubletFinder: Doublet detection in single-cell RNA sequencing data using artificial nearest neighbors , 2018, bioRxiv.

[133]  B. Göttgens,et al.  Single-cell transcriptional profiling: a window into embryonic cell-type specification , 2018, Nature Reviews Molecular Cell Biology.

[134]  Louise S. Matheson,et al.  Unbiased quantification of immunoglobulin diversity at the DNA level with VDJ-seq , 2018, Nature Protocols.

[135]  D. Kreisel,et al.  The Human Heart Contains Distinct Macrophage Subsets with Divergent Origins and Functions , 2018, Nature Medicine.

[136]  J. Molkentin,et al.  Specialized fibroblast differentiated states underlie scar formation in the infarcted mouse heart , 2018, The Journal of clinical investigation.

[137]  Dennis Wolf,et al.  Atlas of the Immune Cell Repertoire in Mouse Atherosclerosis Defined by Single-Cell RNA-Sequencing and Mass Cytometry , 2018, Circulation research.

[138]  A. Durham,et al.  Role of smooth muscle cells in vascular calcification: implications in atherosclerosis and arterial stiffness , 2018, Cardiovascular research.

[139]  Howard Y. Chang,et al.  Transcript-indexed ATAC-seq for precision immune profiling , 2018, Nature Medicine.

[140]  Daniel A. Skelly,et al.  Single-Cell Transcriptional Profiling Reveals Cellular Diversity and Intercommunication in the Mouse Heart. , 2018, Cell reports.

[141]  Luke Zappia,et al.  Exploring the single-cell RNA-seq analysis landscape with the scRNA-tools database , 2017, bioRxiv.

[142]  C. Reutelingsperger,et al.  Coronary Artery Calcification: A Janus-Faced Biomarker? , 2017, JACC. Cardiovascular imaging.

[143]  Fabian J Theis,et al.  SCANPY: large-scale single-cell gene expression data analysis , 2018, Genome Biology.

[144]  A. Hickman,et al.  Perivascular Adipose Tissue Harbors Atheroprotective IgM-Producing B Cells , 2017, Front. Physiol..

[145]  Vanessa M. Peterson,et al.  Multiplexed quantification of proteins and transcripts in single cells , 2017, Nature Biotechnology.

[146]  Hannah A. Pliner,et al.  Reversed graph embedding resolves complex single-cell trajectories , 2017, Nature Methods.

[147]  H. Swerdlow,et al.  Large-scale simultaneous measurement of epitopes and transcriptomes in single cells , 2017, Nature Methods.

[148]  J. Aerts,et al.  SCENIC: Single-cell regulatory network inference and clustering , 2017, Nature Methods.

[149]  M. Potente,et al.  Vascular heterogeneity and specialization in development and disease , 2017, Nature Reviews Molecular Cell Biology.

[150]  J. Molkentin,et al.  Redefining the identity of cardiac fibroblasts , 2017, Nature Reviews Cardiology.

[151]  Andrej J. Savol,et al.  Macrophages Facilitate Electrical Conduction in the Heart , 2017, Cell.

[152]  A. Abate,et al.  SiC-Seq: Single-cell genome sequencing at ultra high-throughput with microfluidic droplet barcoding , 2017, Nature Biotechnology.

[153]  W. Reik,et al.  Genome-wide base-resolution mapping of DNA methylation in single cells using single-cell bisulfite sequencing (scBS-seq) , 2017, Nature Protocols.

[154]  C. Walsh,et al.  Building a lineage from single cells: genetic techniques for cell lineage tracking , 2017, Nature Reviews Genetics.

[155]  André F. Rendeiro,et al.  Pooled CRISPR screening with single-cell transcriptome read-out , 2017, Nature Methods.

[156]  Christopher X. Wong,et al.  Epicardial fat and atrial fibrillation: current evidence, potential mechanisms, clinical implications, and future directions , 2016, European heart journal.

[157]  P. Murray.  Macrophage Polarization. , 2017, Annual review of physiology.

[158]  Thomas M. Norman,et al.  A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response , 2016, Cell.

[159]  Thomas M. Norman,et al.  Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens , 2016, Cell.

[160]  Bin Zhou,et al.  Endothelial cells are progenitors of cardiac pericytes and vascular smooth muscle cells , 2016, Nature Communications.

[161]  S. Jacobsen,et al.  Primitive Embryonic Macrophages are Required for Coronary Development and Maturation. , 2016, Circulation research.

[162]  Charles H. Yoon,et al.  Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq , 2016, Science.

[163]  D. Weitz,et al.  Single-cell ChIP-seq reveals cell subpopulations defined by chromatin state , 2015, Nature Biotechnology.

[164]  Jens R. Nyengaard,et al.  Dynamics of Cell Generation and Turnover in the Human Heart , 2015, Cell.

[165]  Howard Y. Chang,et al.  Single-cell chromatin accessibility reveals principles of regulatory variation , 2015, Nature.

[166]  Ash A. Alizadeh,et al.  Robust enumeration of cell subsets from tissue expression profiles , 2015, Nature Methods.

[167]  A. Regev,et al.  Spatial reconstruction of single-cell gene expression , 2015, Nature Biotechnology.

[168]  D. Mann,et al.  Role of innate and adaptive immune mechanisms in cardiac injury and repair , 2015, Nature Reviews Immunology.

[169]  J. Stender,et al.  Environment Drives Selection and Function of Enhancers Controlling Tissue-Specific Macrophage Identities , 2015, Cell.

[170]  J. Stender,et al.  Environment Drives Selection and Function of Enhancers Controlling Tissue-Specific Macrophage Identities , 2014, Cell.

[171]  A. Shaish,et al.  Experimental Myocardial Infarction Induces Altered Regulatory T Cell Hemostasis, and Adoptive Transfer Attenuates Subsequent Remodeling , 2014, PloS one.

[172]  D. Mann,et al.  Distinct macrophage lineages contribute to disparate patterns of cardiac recovery and remodeling in the neonatal and adult heart , 2014, Proceedings of the National Academy of Sciences.

[173]  O. Stegle,et al.  Single-Cell Genome-Wide Bisulfite Sequencing for Assessing Epigenetic Heterogeneity , 2014, Nature Methods.

[174]  G. Ertl,et al.  Foxp3+ CD4+ T Cells Improve Healing After Myocardial Infarction by Modulating Monocyte/Macrophage Differentiation , 2014, Circulation research.

[175]  S. Allahverdian,et al.  Contribution of Intimal Smooth Muscle Cells to Cholesterol Accumulation and Macrophage-Like Cells in Human Atherosclerosis , 2014, Circulation.

[176]  Cole Trapnell,et al.  Pseudo-temporal ordering of individual cells reveals dynamics and regulators of cell fate decisions , 2014, Nature Biotechnology.

[177]  Ansuman T. Satpathy,et al.  Embryonic and adult-derived resident cardiac macrophages are maintained through distinct mechanisms at steady state and during inflammation. , 2014, Immunity.

[178]  S. Homma,et al.  Enhanced Efferocytosis of Apoptotic Cardiomyocytes Through Myeloid-Epithelial-Reproductive Tyrosine Kinase Links Acute Inflammation Resolution to Cardiac Repair After Infarction , 2013, Circulation research.

[179]  Marco Manca,et al.  Distribution of macrophage polarization markers in human atherosclerosis. , 2012, Atherosclerosis.

[180]  K. Kimura,et al.  Development, Maturation, and Transdifferentiation of Cardiac Sympathetic Nerves , 2012, Circulation research.

[181]  Ruth C Lovering,et al.  Transcriptomic analyses of murine resolution-phase macrophages. , 2011, Blood.

[182]  E. Keshet,et al.  Vascular endothelial growth factor and vascular homeostasis. , 2011, Proceedings of the American Thoracic Society.

[183]  C. Betsholtz,et al.  Pericytes: developmental, physiological, and pathological perspectives, problems, and promises. , 2011, Developmental cell.

[184]  Sean C. Bendall,et al.  Single-Cell Mass Cytometry of Differential Immune and Drug Responses Across a Human Hematopoietic Continuum , 2011, Science.

[185]  G. Freeman,et al.  Impairment of the Programmed Cell Death-1 Pathway Increases Atherosclerotic Lesion Development and Inflammation , 2011, Arteriosclerosis, thrombosis, and vascular biology.

[186]  K. Moore,et al.  Macrophages in the Pathogenesis of Atherosclerosis , 2011, Cell.

[187]  Jing Yuan,et al.  Regulatory T cells ameliorate cardiac remodeling after myocardial infarction , 2011, Basic Research in Cardiology.

[188]  S. Tsang,et al.  Differential gene expressions in atrial and ventricular myocytes: insights into the road of applying embryonic stem cell-derived cardiomyocytes for future therapies. , 2010, American journal of physiology. Cell physiology.

[189]  B. Williams,et al.  Mapping and quantifying mammalian transcriptomes by RNA-Seq , 2008, Nature Methods.

[190]  S. Nagata,et al.  Identification of Tim4 as a phosphatidylserine receptor , 2007, Nature.

[191]  William C. Aird,et al.  Phenotypic Heterogeneity of the Endothelium: I. Structure, Function, and Mechanisms , 2007, Circulation research.

[192]  Elena Galkina,et al.  Lymphocyte recruitment into the aortic wall before and during development of atherosclerosis is partially L-selectin dependent , 2006, The Journal of experimental medicine.

[193]  M. Buckingham,et al.  Building the mammalian heart from two sources of myocardial cells , 2005, Nature Reviews Genetics.

[194]  M. Buckingham,et al.  The clonal origin of myocardial cells in different regions of the embryonic mouse heart. , 2004, Developmental cell.

[195]  E. Krause,et al.  Basic Research in Cardiology , 1994, Basic Research in Cardiology.

[196]  Kristi Kincaid,et al.  M-1/M-2 Macrophages and the Th1/Th2 Paradigm1 , 2000, The Journal of Immunology.

[197]  G. Owens,et al.  Regulation of differentiation of vascular smooth muscle cells. , 1995, Physiological reviews.

[198]  P. Mosse,et al.  Balloon Catheter Injury to Rabbit Carotid Artery: I. Changes in Smooth Muscle Phenotype , 1989, Arteriosclerosis.