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Single-cell analysis of prenatal and postnatal human cortical developmentSEA-AD: Seattle Alzheimer’s Disease Brain Cell AtlasHTAN-CHOP - Single-cell multiomics reveals increased plasticity, resistant populations, and stem-cell–like blasts in KMT2A-rearranged leukemiaSpatial and cell type transcriptional landscape of human cerebellar developmentSingle-cell transcriptomic atlas for adult human retinaLungMAP — The genomic, epigenomic and biophysical cues controlling the emergence of the gas exchange niche in the lung.Single-nucleus cross-tissue molecular reference maps to decipher disease gene functionSingle cell derived mRNA signals across human kidney tumorsUrethral luminal epithelia are castration-insensitive cells of the proximal prostateImmunophenotyping of COVID-19 and influenza highlights the role of type I interferons in development of severe COVID-19Human developing neocortex by areaHuman breast cell atlasTime-resolved Systems Immunology Reveals a Late Juncture Linked to Fatal COVID-19Single cell RNA sequencing of CD19 CAR T-cell infusion productsSingle-cell gene expression profiling of SARS-CoV-2 infected human cell linesA human cell atlas of fetal gene expressionSingle-cell multiome of the human retina and deep learning nominate causal variants in complex eye diseasesCross-tissue immune cell analysis reveals tissue-specific features in humansA molecular cell atlas of the human lung from single cell RNA sequencingMultimodal single cell sequencing implicates chromatin accessibility and genetic background in diabetic kidney disease progressionSingle-Cell Analysis of Crohn’s Disease Lesions Identifies a Pathogenic Cellular Module Associated with Resistance to Anti-TNF TherapyCells of the human intestinal tract mapped across space and timeA Cellular Anatomy of the Normal Adult Human Prostate and Prostatic UrethraLongitudinal profiling of respiratory and systemic immune responses reveals myeloid cell-driven lung inflammation in severe COVID-19Early role for a Na+,K+-ATPase (ATP1A3) in brain developmentMolecular characterization of selectively vulnerable neurons in Alzheimer's DiseaseSingle-Cell, Single-Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal HeterogeneityA spatially resolved single cell genomic atlas of the adult human breastMouse pancreatic islet scRNA-seq atlas across sexes, ages, and stress conditions including diabetesPediatric FGID lamina propria of ileum biopsies.Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn’s DiseaseIntegrated scRNA-Seq Identifies Human Postnatal Thymus Seeding Progenitors and Regulatory Dynamics of Differentiating Immature ThymocytesMassively multiplex chemical transcriptomics at single-cell resolutionSingle-cell reconstruction of the early maternal–fetal interface in humansA single-cell transcriptional roadmap of the mouse and human lymph node lymphatic vasculatureMapping the transcriptional landscape of human white and brown adipogenesis using single-nuclei RNA-seqSingle cell dissection of plasma cell heterogeneity in symptomatic and asymptomatic myelomaMapping the developing human immune system across organsMapping single-cell transcriptomes in the intra-tumoral and associated territories of kidney cancerStress-induced RNA–chromatin interactions promote endothelial dysfunctionCell Atlas of The Human Fovea and Peripheral RetinaSingle-cell proteo-genomic reference maps of the hematopoietic system enable the purification and massive profiling of precisely defined cell statesscRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservationSingle-cell reconstruction of follicular remodeling in the human adult ovaryLungMAP — Human data from a broad age healthy donor groupSingle cell analysis of mouse and human prostate reveals novel fibroblasts with specialized distribution and microenvironment interactionsSingle-cell Atlas of common variable immunodeficiency shows germinal center-associated epigenetic dysregulation in B-cell responsesSingle cell atlas of CD19 CAR T-cellsHigh Resolution Slide-seqV2 Spatial Transcriptomics Enables Discovery of Disease-Specific Cell Neighborhoods and PathwaysA single-cell transcriptome atlas of the adult human retinaSingle-cell roadmap of human gonadal developmentSpatial transcriptomic maps of whole mouse embryos reveal principles of neural tube patterningSpatial multiomics map of trophoblast development in early pregnancyA blood atlas of COVID-19 defines hallmarks of disease severity and specificityCell Types of the Human Retina and Its Organoids at Single-Cell ResolutionImpaired local intrinsic immunity to SARS-CoV-2 infection in severe COVID-19Integrated analysis of multimodal single-cell dataDirect Exposure to SARS-CoV-2 and Cigarette Smoke Increases Infection Severity and Alters the Stem Cell-Derived Airway Repair ResponseConstruction of a human cell landscape at single-cell levelHigh-resolution single-cell atlas reveals diversity and plasticity of tumor-associated neutrophils in non-small cell lung cancerSpatiotemporal analysis of human intestinal development at single-cell resolutionSpatial multi-omic map of human myocardial infarctionHCA kidney seed network: University of MichiganHuman cortical expansion involves diversification and specialization of supragranular intratelencephalic-projecting neuronsSpatially mapping T cell receptors and transcriptomesThe landscape of immune dysregulation in Crohn’s disease revealed through single-cell transcriptomic profiling in the ileum and colonCellular heterogeneity of human fallopian tubes in normal and hydrosalpinx disease states identified by scRNA-seqA molecular single-cell lung atlas of lethal COVID-19Blood and immune development in human fetal bone marrow and Down syndromeIntra- and Inter-cellular Rewiring of the Human Colon during Ulcerative ColitisInsulin is expressed by enteroendocrine cells during human fetal developmentCharting human development using a multi-endodermal organ atlas and organoid modelsSampling peripheral blood and matched nasal swabs from donors with prior immunodeficiencies and autoimmune conditions infected with SARS-CoV-2Single-cell transcriptomes from human kidneys reveal the cellular identity of renal tumorsMultiomics single-cell analysis of human pancreatic islets reveals novel cellular states in health and type 1 diabetesDevelopmental trajectories of thalamic nuclei revealed by single-cell transcriptome profiling and Shh perturbationSingle-cell eQTL mapping identifies cell type specific genetic control of autoimmune diseaseSingle-Cell RNAseq analysis of diffuse neoplastic infiltrating cells at the migrating front of human glioblastomaHarmonized single-cell landscape, intercellular crosstalk and tumor architecture of glioblastomaDistinct microbial and immune niches of the human colonSingle-cell transcriptomics of human T cells reveals tissue and activation signatures in health and diseaseHypoMap – a unified single cell gene expression atlas of the murine hypothalamusInflammatory blockade prevents injury to the developing pulmonary gas exchange surface in preterm primatesMuraro PancreasHuman Brain Cell Atlas v1.0Single cell RNA sequencing of follicular lymphomaTabula Muris SenisCell atlas of the human ocular anterior segment: Tissue-specific and shared cell typesA comprehensive mouse kidney atlas enables rare cell population characterization and robust marker discoveryTranscriptomic cytoarchitecture reveals principles of human neocortex organizationA cell atlas of human thymic development defines T cell repertoire formationSingle-cell longitudinal analysis of SARS-CoV-2 infection in human bronchial epithelial cellsSingle nuclei RNA- sequencing from the white matter of individuals with progressive MS and non-neurological controlsShared and distinct transcriptomic cell types across neocortical areasSingle-cell analysis of human B cell maturation predicts how antibody class switching shapes selection dynamicsSingle-cell atlas of peripheral immune response to SARS-CoV-2 infectionSingle-cell transcriptome analysis reveals differential nutrient absorption functions in human intestineMapping the temporal and spatial dynamics of the human endometrium in vivo and in vitroA human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fatesA Web Portal and Workbench for Biological Dissection of Single Cell COVID-19 Host ResponsesMSK SPECTRUM – Ovarian cancer mutational processes drive site-specific immune evasionSingle-Cell Analysis of Human Pancreas Reveals Transcriptional Signatures of Aging and Somatic Mutation PatternsMolecular, spatial and projection diversity of neurons in primary motor cortex revealed by in situ single-cell transcriptomicsAzimuth meta-analysis of human scRNA-seq datasetsA molecular atlas of the human postmenopausal fallopian tube and ovary from single-cell RNA and ATAC sequencingIdentification of distinct tumor cell populations and key genetic mechanisms through single cell sequencing in hepatoblastomaTranscriptional Programming of Normal and Inflamed Human Epidermis at Single-Cell ResolutionSpatially resolved multiomics of human cardiac nichesHumoral immunity at the brain borders in homeostasisSingle cell RNA sequencing of bone marrow mononuclear cells from healthy donors and B-cell lymphoma patients following CD19 CAR T-cell therapyDifferential cell composition and split epidermal differentiation in human palm, sole, and hip skinSingle-cell analyses of renal cell cancers reveal insights into tumor microenvironment, cell of origin, and therapy responseSingle cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populationsSingle-cell RNA sequencing unifies developmental programs of Esophageal and Gastric Intestinal MetaplasiaResolving cellular and molecular diversity along the hippocampal anterior-to-posterior axis in humansAn Integrated Single Cell Meta-atlas of Human PeriodontitisAbdominal White Adipose TissueSARS-CoV-2 receptor ACE2 and TMPRSS2 are primarily expressed in bronchial transient secretory cellsSingle cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidneyA transcriptional cross species map of pancreatic islet cellsAn integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell typesSpatiotemporal immune zonation of the human kidneyA proximal-to-distal survey of healthy adult human small intestine and colon epithelium by single-cell transcriptomicsPathogenic variants damage cell composition and single cell transcription in cardiomyopathiesCOVID-19 immune features revealed by a large-scale single-cell transcriptome atlasMolecular and spatial signatures of mouse brain aging at single-cell resolutionAcute COVID-19 cohort across a range of WHO categories seen at the Department of Emergency Medicine at MGHSingle-cell transcriptomics characterization of oligodendrocytes and microglia in white matter agingPhenotypic variation of transcriptomic cell types in mouse motor cortexIntratumoral heterogeneity in recurrent pediatric pilocytic astrocytomasAn Atlas of Gene Regulatory Elements in Adult Mouse CerebrumA taxonomy of transcriptomic cell types across the isocortex and hippocampal formationCOVID-19 mRNA vaccine elicits a potent adaptive immune response in the absence of persistent inflammation observed in SARS-CoV-2 infectionA transcriptomic atlas of the mouse cerebellum reveals regional specializations and novel cell typesSingle-cell multi-omics analysis of the immune response in COVID-19A marmoset brain cell census reveals influence of developmental origin and functional class on neuronal identityA single-cell transcriptomic atlas spanning the adult rhesus macaque brainTabula SapiensDNA Methylation Atlas of the Mouse Brain at Single-Cell ResolutionAdult mouse cortical cell taxonomy revealed by single cell transcriptomicsThe integrated Human Lung Cell AtlasBrain matters: Unveiling the Distinct Contributions of Region, Age, and Sex to Glia diversity and CNS FunctionSingle-soma transcriptomics of tangle-bearing neurons in Alzheimer’s diseaseAsian Immune Diversity Atlas (AIDA)Live Human Microglia Single-cell RNA-seqHTAN MSK - Transcriptional connectivity of regulatory T cells in the tumor microenvironment informs novel combination cancer therapy strategiesHTAN VUMC - Differential pre-malignant programs and microenvironment chart distinct paths to malignancy in human colorectal polypsIntegrated adult and foetal heart single-cell RNA sequencingHTAN MSK - Single cell profiling reveals novel tumor and myeloid subpopulations in small cell lung cancerA single-cell atlas of the healthy breast tissues reveals clinically relevant clusters of breast epithelial cellsAn atlas of healthy and injured cell states and niches in the human kidneyMulti-omic profiling of the developing human cerebral cortex at the single cell levelSingle-cell transcriptomic atlas of the human retina identifies cell types associated with age-related macular degenerationSingle Cell Multiome Atlas of the Human Fetal RetinaComparative transcriptomics reveals human-specific cortical featuresEmphysema Cell AtlasSpatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage nichesA human breast atlas integrating single-cell proteomics and transcriptomicsSingle-Cell DNA Methylation and 3D Genome Human Brain AtlasIntegration of eQTL and a Single-Cell Atlas in the Human Eye Identifies Causal Genes for Age-Related Macular DegenerationA single-cell and spatially resolved atlas of human breast cancersSingle-cell transcriptomes of the human skin reveal age-related loss of fibroblast primingCellular development and evolution of the mammalian cerebellumSingle cell atlas of the human retinaSingle-cell sequencing links multiregional immune landscapes and tissue-resident T cells in ccRCC to tumor topology and therapy efficacySingle-cell genomic profiling of human dopamine neurons identifies a population that selectively degenerates in Parkinson’s diseaseSingle-cell transcriptomics of the human retinal pigment epithelium and choroid in health and macular degenerationCells of the adult human heartCell atlas of antigen-presenting and stromal cells from the human intestineType I interferon autoantibodies are associated with systemic immune alterations in patients with COVID-19Neuron type-specific effects of human aging and sex on DNA methylation and transcriptionLocal and systemic responses to SARS-CoV-2 infection in children and adultsSingle-cell RNA-seq reveals the cell-type-specific molecular and genetic associations to lupusEvolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse