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Dysregulation of brain and choroid plexus cell types in severe COVID-19Single cell RNA sequencing of paw skin from healthy and Col7a1 knockout (RDEB) miceCortical brain samples from C9-ALS, C9-ALS/FTD, C9-FTD patients and age matched controlsA cell cycle variant coordinates multiciliated cell differentiationTabula SapiensCells of the adult human heartA taxonomy of transcriptomic cell types across the isocortex and hippocampal formationSpatial and cell type transcriptional landscape of human cerebellar developmentLungMAP — The genomic, epigenomic and biophysical cues controlling the emergence of the gas exchange niche in the lung.DNA Methylation Atlas of the Mouse Brain at Single-Cell ResolutionA Cellular Anatomy of the Normal Adult Human Prostate and Prostatic UrethraBlood and immune development in human fetal bone marrow and Down syndromeCell Types of the Human Retina and Its Organoids at Single-Cell ResolutionscRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservationInsulin is expressed by enteroendocrine cells during human fetal developmentMultiomic Profiling of Human Clonal Hematopoiesis Reveals Genotype and Cell-Specific Inflammatory Pathway ActivationDevelopmental trajectories of thalamic nuclei revealed by single-cell transcriptome profiling and Shh perturbationA blood atlas of COVID-19 defines hallmarks of disease severity and specificitySingle cell RNA sequencing of follicular lymphomaA proximal-to-distal survey of healthy adult human small intestine and colon epithelium by single-cell transcriptomicsHTAN MSK - Single cell profiling reveals novel tumor and myeloid subpopulations in small cell lung cancerA spatially resolved single cell genomic atlas of the adult human breastSingle-cell transcriptome analysis reveals differential nutrient absorption functions in human intestineSingle-cell transcriptomics of human T cells reveals tissue and activation signatures in health and diseaseHuman cortical expansion involves diversification and specialization of supragranular intratelencephalic-projecting neuronsMuraro PancreasSingle-cell transcriptomes from human kidneys reveal the cellular identity of renal tumorsMolecular and spatial signatures of mouse brain aging at single-cell resolutionAdult mouse cortical cell taxonomy revealed by single cell transcriptomicsIntra- and Inter-cellular Rewiring of the Human Colon during Ulcerative ColitisIdentification of distinct tumor cell populations and key genetic mechanisms through single cell sequencing in hepatoblastomaSingle cell atlas of CD19 CAR T-cellsSingle-Cell, Single-Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal HeterogeneityHumoral immunity at the brain borders in homeostasisPediatric FGID lamina propria of ileum biopsies.Azimuth meta-analysis of human scRNA-seq datasetsMouse pancreatic islet scRNA-seq atlas across sexes, ages, and stress conditions including diabetesSpatial multi-omic map of human myocardial infarctionA Web Portal and Workbench for Biological Dissection of Single Cell COVID-19 Host ResponsesCell atlas of antigen-presenting and stromal cells from the human intestineImmunophenotyping of COVID-19 and influenza highlights the role of type I interferons in development of severe COVID-19Single-cell analysis of human B cell maturation predicts how antibody class switching shapes selection dynamicsSingle-cell genomic profiling of human dopamine neurons identifies a population that selectively degenerates in Parkinson’s diseaseHuman developing neocortex by areaSpatial transcriptomic maps of whole mouse embryos reveal principles of neural tube patterningHuman photoreceptor cells from different macular subregions have distinct transcriptional profilesSingle-cell transcriptome profiling of the human developing spinal cord reveals a conserved genetic programme with human-specific featuresMulti-scale spatial mapping of cell populations across anatomical sites in healthy human skin and basal cell carcinomaSingle-cell RNA sequencing unifies developmental programs of Esophageal and Gastric Intestinal MetaplasiaSingle Cell Multiome Atlas of the Human Fetal RetinaCell atlas of the human ocular anterior segment: Tissue-specific and shared cell typesAbdominal White Adipose TissueHuman breast cell atlasMouse perinatal heart maturation scRNA-seqConstruction of a human cell landscape at single-cell levelSingle-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn’s DiseaseDevelopmental cell programs are co-opted in inflammatory skin diseaseImpaired local intrinsic immunity to SARS-CoV-2 infection in severe COVID-19Mapping the temporal and spatial dynamics of the human endometrium in vivo and in vitroA human cell atlas of fetal gene expressionSpatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage nichesResolving cellular and molecular diversity along the hippocampal anterior-to-posterior axis in humansMultimodal single cell sequencing implicates chromatin accessibility and genetic background in diabetic kidney disease progressionA single-cell atlas of human and mouse white adipose tissueSingle-cell and spatial transcriptomics characterisation of the immunological landscape in the healthy and PSC human liverA cell atlas of human thymic development defines T cell repertoire formationMapping the transcriptional landscape of human white and brown adipogenesis using single-nuclei RNA-seqCells of the human intestinal tract mapped across space and timeSingle-cell analyses of renal cell cancers reveal insights into tumor microenvironment, cell of origin, and therapy responseMapping the developing human immune system across organsSingle-cell RNA-seq reveals the cell-type-specific molecular and genetic associations to lupusUrethral luminal epithelia are castration-insensitive cells of the proximal prostateA molecular cell atlas of the human lung from single cell RNA sequencingSingle-Cell RNAseq analysis of diffuse neoplastic infiltrating cells at the migrating front of human glioblastomaEarly role for a Na+,K+-ATPase (ATP1A3) in brain developmentTranscriptional responses of the human dorsal striatum in opioid use disorder implicates cell type-specifc programsIntegration of eQTL and a Single-Cell Atlas in the Human Eye Identifies Causal Genes for Age-Related Macular DegenerationSpatially mapping T cell receptors and transcriptomesThe integrated Human Lung Cell AtlasMolecular, spatial and projection diversity of neurons in primary motor cortex revealed by in situ single-cell transcriptomicsA molecular single-cell lung atlas of lethal COVID-19Spatiotemporal analysis of human intestinal development at single-cell resolutionA single-cell transcriptome atlas of the adult human retinaSingle cell transcriptomic profiling identifies molecular phenotypes of newborn human lung cellsShared and distinct transcriptomic cell types across neocortical areasType I interferon responsive microglia shape cortical development and behaviorSampling peripheral blood and matched nasal swabs from donors with prior immunodeficiencies and autoimmune conditions infected with SARS-CoV-2Intratumoral heterogeneity in recurrent pediatric pilocytic astrocytomasInflammatory blockade prevents injury to the developing pulmonary gas exchange surface in preterm primatesSingle-cell transcriptomic atlas of the human retina identifies cell types associated with age-related macular degenerationHigh-resolution single-cell atlas reveals diversity and plasticity of tumor-associated neutrophils in non-small cell lung cancerA single-cell transcriptional roadmap of the mouse and human lymph node lymphatic vasculatureSARS-CoV-2 receptor ACE2 and TMPRSS2 are primarily expressed in bronchial transient secretory cellsAn atlas of healthy and injured cell states and niches in the human kidneyA single-cell transcriptomic atlas spanning the adult rhesus macaque brainA molecularly defined and spatially resolved cell atlas of the whole mouse brainSingle cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populationsHTAN VUMC - Differential pre-malignant programs and microenvironment chart distinct paths to malignancy in human colorectal polypsType I interferon autoantibodies are associated with systemic immune alterations in patients with COVID-19Single-cell eQTL mapping identifies cell type specific genetic control of autoimmune diseaseComparative transcriptomics reveals human-specific cortical featuresA molecular atlas of the human postmenopausal fallopian tube and ovary from single-cell RNA and ATAC sequencingA single-cell atlas of the healthy breast tissues reveals clinically relevant clusters of breast epithelial cellsEvolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouseSpatiotemporal immune zonation of the human kidneyStress-induced RNA–chromatin interactions promote endothelial dysfunctionCellular development and evolution of the mammalian cerebellumLungMAP — Human data from a broad age healthy donor groupSingle cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidneyHuman Brain Cell Atlas v1.0The cellular landscape of breast cancer associated malignant pleural effusionsMulti-omic profiling of the developing human cerebral cortex at the single cell levelSEA-AD: Seattle Alzheimer’s Disease Brain Cell AtlasA spatially resolved atlas of the human lung characterizes a gland-associated immune nicheSingle-cell transcriptomic atlas for adult human retinaSingle-cell multiome of the human retina and deep learning nominate causal variants in complex eye diseasesMSK SPECTRUM – Ovarian cancer mutational processes drive site-specific immune evasionCell Atlas of The Human Fovea and Peripheral RetinaScaleBio Single Cell RNA Sequencing of Human PBMCsSingle-cell transcriptomics characterization of oligodendrocytes and microglia in white matter agingAcute COVID-19 cohort across a range of WHO categories seen at the Department of Emergency Medicine at MGHIntegrated scRNA-Seq Identifies Human Postnatal Thymus Seeding Progenitors and Regulatory Dynamics of Differentiating Immature ThymocytesSingle-cell atlas of peripheral immune response to SARS-CoV-2 infectionHTAN MSK - Transcriptional connectivity of regulatory T cells in the tumor microenvironment informs novel combination cancer therapy strategiesTime-resolved Systems Immunology Reveals a Late Juncture Linked to Fatal COVID-19Molecular and cellular evolution of the primate dorsolateral prefrontal cortexSingle-nucleus cross-tissue molecular reference maps to decipher disease gene functionSingle-Cell Analysis of Crohn’s Disease Lesions Identifies a Pathogenic Cellular Module Associated with Resistance to Anti-TNF TherapyHCA kidney seed network: University of MichiganAn Atlas of Gene Regulatory Elements in Adult Mouse CerebrumBrain matters: Unveiling the Distinct Contributions of Region, Age, and Sex to Glia diversity and CNS FunctionTranscriptional Programming of Normal and Inflamed Human Epidermis at Single-Cell ResolutionAsian Immune Diversity Atlas (AIDA)Single-cell sequencing links multiregional immune landscapes and tissue-resident T cells in ccRCC to tumor topology and therapy efficacyDistinct microbial and immune niches of the human colonMapping single-cell transcriptomes in the intra-tumoral and associated territories of kidney cancerMassively multiplex chemical transcriptomics at single-cell resolutionTranscriptomic cytoarchitecture reveals principles of human neocortex organizationCOVID-19 mRNA vaccine elicits a potent adaptive immune response in the absence of persistent inflammation observed in SARS-CoV-2 infectionA transcriptional cross species map of pancreatic islet cellsIntegrated analysis of multimodal single-cell dataPhenotypic variation of transcriptomic cell types in mouse motor cortexSpatial multiomics map of trophoblast development in early pregnancyHigh Resolution Slide-seqV2 Spatial Transcriptomics Enables Discovery of Disease-Specific Cell Neighborhoods and PathwaysSingle cell atlas of the human retinaA human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fatesA transcriptomic atlas of the mouse cerebellum reveals regional specializations and novel cell typesSingle-cell transcriptomics of the human retinal pigment epithelium and choroid in health and macular degenerationA single-cell and spatially resolved atlas of human breast cancersSingle-cell multi-omics analysis of the immune response in COVID-19Single cell analysis of mouse and human prostate reveals novel fibroblasts with specialized distribution and microenvironment interactionsSingle-soma transcriptomics of tangle-bearing neurons in Alzheimer’s diseaseLongitudinal profiling of respiratory and systemic immune responses reveals myeloid cell-driven lung inflammation in severe COVID-19Generation of complex human induced pluripotent stem cell-derived bone marrow organoidsSingle-cell reconstruction of the early maternal–fetal interface in humansSingle-Cell Analysis of Human Pancreas Reveals Transcriptional Signatures of Aging and Somatic Mutation PatternsProtracted Neuronal Recruitment in the Temporal Lobe of Young ChildrenHTAN-CHOP - Single-cell multiomics reveals increased plasticity, resistant populations, and stem-cell–like blasts in KMT2A-rearranged leukemiaSingle-cell reconstruction of follicular remodeling in the human adult ovaryTabula Muris SenisThe landscape of immune dysregulation in Crohn’s disease revealed through single-cell transcriptomic profiling in the ileum and colonLive Human Microglia Single-cell RNA-seqIntegrated adult and foetal heart single-cell RNA sequencingSingle-cell Atlas of common variable immunodeficiency shows germinal center-associated epigenetic dysregulation in B-cell responsesSingle cell dissection of plasma cell heterogeneity in symptomatic and asymptomatic myelomaA marmoset brain cell census reveals influence of developmental origin and functional class on neuronal identityEmphysema Cell AtlasA human breast atlas integrating single-cell proteomics and transcriptomicsSingle cell RNA sequencing of CD19 CAR T-cell infusion productsPathogenic variants damage cell composition and single cell transcription in cardiomyopathiesSingle-Cell DNA Methylation and 3D Genome Human Brain AtlasSingle cell derived mRNA signals across human kidney tumorsSingle-cell transcriptomes of the human skin reveal age-related loss of fibroblast primingSingle-cell roadmap of human gonadal developmentCOVID-19 immune features revealed by a large-scale single-cell transcriptome atlasLocal and systemic responses to SARS-CoV-2 infection in children and adultsNeuron type-specific effects of human aging and sex on DNA methylation and transcriptionSingle-cell proteo-genomic reference maps of the hematopoietic system enable the purification and massive profiling of precisely defined cell statesCross-tissue immune cell analysis reveals tissue-specific features in humansSingle-cell gene expression profiling of SARS-CoV-2 infected human cell linesSingle-cell analysis of prenatal and postnatal human cortical developmentDirect Exposure to SARS-CoV-2 and Cigarette Smoke Increases Infection Severity and Alters the Stem Cell-Derived Airway Repair ResponseMultiomics single-cell analysis of human pancreatic islets reveals novel cellular states in health and type 1 diabetesCharting human development using a multi-endodermal organ atlas and organoid modelsCellular heterogeneity of human fallopian tubes in normal and hydrosalpinx disease states identified by scRNA-seqSingle cell RNA sequencing of bone marrow mononuclear cells from healthy donors and B-cell lymphoma patients following CD19 CAR T-cell therapyAn integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell typesSingle nuclei RNA- sequencing from the white matter of individuals with progressive MS and non-neurological controlsSingle-cell longitudinal analysis of SARS-CoV-2 infection in human bronchial epithelial cellsDifferential cell composition and split epidermal differentiation in human palm, sole, and hip skinHarmonized single-cell landscape, intercellular crosstalk and tumor architecture of glioblastomaHypoMap – a unified single cell gene expression atlas of the murine hypothalamusHuman Trophoblast OrganoidsUnified comprehensive single-cell atlas of the mouse retinaA comprehensive mouse kidney atlas enables rare cell population characterization and robust marker discoveryAn Integrated Single Cell Atlas of Human PeriodontitisSpatially resolved multiomics of human cardiac nichesMolecular characterization of selectively vulnerable neurons in Alzheimer's DiseaseA single-cell transcriptional timelapse of mouse embryonic development, from gastrula to pup