Author: Nir Hacohen

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Preprints

Differentiation of exhausted CD8 T cells after termination of chronic antigen stimulation stops short of achieving functional T cell memory

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Systematic comparative analysis of single cell RNA-sequencing methods

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The Human Cell Atlas

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A protocol for single-cell transcriptomics from cryopreserved renal tissue and urine for the Accelerating Medicine Partnership (AMP) RA/SLE network

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Defining Inflammatory Cell States in Rheumatoid Arthritis Joint Synovial Tissues by Integrating Single-cell Transcriptomics and Mass Cytometry

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Thousands of novel unannotated proteins expand the MHC I immunopeptidome in cancer

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Plasma proteomics reveals tissue-specific cell death and mediators of cell-cell interactions in severe COVID-19 patients

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Temporal and Spatial Heterogeneity of Host Response to SARS-CoV-2 Pulmonary Infection

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Genome-wide maps of enhancer regulation connect risk variants to disease genes

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SARS-CoV-2 infected cells present HLA-I peptides from canonical and out-of-frame ORFs

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A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2

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Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease.

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The immune cell landscape in kidneys of lupus nephritis patients

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Landscape of X chromosome inactivation across human tissues

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Single Cell Transcriptomics And Flow Cytometry Reveal Disease-Associated Fibroblast Subsets In Rheumatoid Arthritis

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Cumulus: a cloud-based data analysis framework for large-scale single-cell and single-nucleus RNA-seq

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GeNets: A unified web platform for network-based analyses of genomic data

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Multicellular immune hubs and their organization in MMRd and MMRp colorectal cancer

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An eQTL landscape of kidney tissue in human nephrotic syndrome

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Induction of a regulatory myeloid program in bacterial sepsis and severe COVID-19

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Targeting individual cells by barcode in pooled sequence libraries

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High dimensional analyses of cells dissociated from cryopreserved synovial tissue

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A cell-free antibody engineering platform rapidly generates SARS-CoV-2 neutralizing antibodies

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Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of ERAP2 transcripts under balancing selection

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Multiplexed enrichment and genomic profiling of peripheral immune cell subsets on a microfluidic chip

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MAUDE: Inferring expression changes in sorting-based CRISPR screens

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SARS-CoV-2 Viremia is Associated with Distinct Proteomic Pathways and Predicts COVID-19 Outcomes

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Integration of urine proteomics and renal single-cell genomics identifies an interferon-gamma response gradient in lupus nephritis.

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SLAMF6 deficiency augments tumor killing and skews towards an effector phenotype revealing it as a new T cell checkpoint

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Alternative splicing of SLAMF6 in human T cells creates a co-stimulatory isoform that counteracts the inhibitory effect of the full-length receptor

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An efficient lentiviral CRISPRi approach to silence genes in primary human monocytes

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Application of a 27-protein candidate cardiovascular surrogate endpoint to track risk ascendancy and resolution in COVID-19.

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