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Search Results to Fan Zhang

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Zhang, Fan

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Single-cell Multi-Omics

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We are a Computational Omics and Systems Immunology (COSI) lab https://fanzhanglab.org/ in the Department of Medicine Division of Rheumatology and the Center for Health AI, University of Colorado Anschutz Campus. We develop and use statistical machine learning methods, single-cell multi-omics, and systems immunology to study inflammatory diseases through deep collaborations with immunologists, rheumatologists, and clinicians. We are actively recruiting motivated computational biologists who are interested in dynamic and interdisciplinary research for translational medicine. Check our website https://fanzhanglab.org/ for more recent research and publications!

One or more keywords matched the following items that are connected to Zhang, Fan

Item Type	Name
Concept	Jurkat Cells
Concept	Cell Movement
Concept	Epithelial Cells
Concept	Cell Communication
Concept	Polymorphism, Single Nucleotide
Concept	Dendritic Cells
Concept	Induced Pluripotent Stem Cells
Concept	Cell Differentiation
Concept	Cell Shape
Concept	Myeloid Cells
Concept	Plasma Cells
Concept	Cell Polarity
Concept	Cells, Cultured
Concept	Cell Proliferation
Concept	Th17 Cells
Concept	Single-Cell Analysis
Concept	HEK293 Cells
Academic Article	Defining inflammatory cell states in rheumatoid arthritis joint synovial tissues by integrating single-cell transcriptomics and mass cytometry.
Academic Article	Fc?R engagement reprograms neutrophils into antigen cross-presenting cells that elicit acquired anti-tumor immunity.
Academic Article	RVD2: an ultra-sensitive variant detection model for low-depth heterogeneous next-generation sequencing data.
Academic Article	Single-cell transcriptomics in cancer: computational challenges and opportunities.
Academic Article	Efficient and precise single-cell reference atlas mapping with Symphony.
Academic Article	RNA Identification of PRIME Cells Predicting Rheumatoid Arthritis Flares.
Academic Article	HBEGF+ macrophages in rheumatoid arthritis induce fibroblast invasiveness.
Academic Article	The immune cell landscape in kidneys of patients with lupus nephritis.
Academic Article	Fast, sensitive and accurate integration of single-cell data with Harmony.
Grant	Deciphering shared inflammatory myeloid phenotypes between rheumatoid arthritis (RA) and RA-associated interstitial lung disease by Computational Omics
Academic Article	Granzyme K+ CD8 T cells form a core population in inflamed human tissue.
Academic Article	Dynamic spectrum of ectopic lymphoid B cell activation and hypermutation in the RA synovium characterized by NR4A nuclear receptor expression.
Academic Article	Single-cell computational machine learning approaches to immune-mediated inflammatory disease: New tools uncover novel fibroblast and macrophage interactions driving pathogenesis.
Grant	Deciphering complement-dependent phagocytic myeloid phenotypes in human autoimmune arthritis using single-cell computational omics
Academic Article	The Chromatin Landscape of Pathogenic Transcriptional Cell States in Rheumatoid Arthritis.
Academic Article	Associations Between Rheumatoid Arthritis Clinical Factors and Synovial Cell Types and States.
Academic Article	Deconstruction of rheumatoid arthritis synovium defines inflammatory subtypes.
Grant	Multi-Omics Integration with Machine Learning to Reveal Synovium Phenotypes in Ankle Osteoarthritis
Academic Article	Network-based cytokine inference implicates Oncostatin M as a driver of an inflammation phenotype in knee osteoarthritis.
Academic Article	Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution.
Academic Article	Synovial fibroblast gene expression is associated with sensory nerve growth and pain in rheumatoid arthritis.
Academic Article	The chromatin landscape of pathogenic transcriptional cell states in rheumatoid arthritis.
Academic Article	Uncover spatially informed variations for single-cell spatial transcriptomics with STew.
Academic Article	Clonal associations between lymphocyte subsets and functional states in rheumatoid arthritis synovium.
Academic Article	Immune mechanisms in fibrotic interstitial lung disease.
Academic Article	A longitudinal single-cell atlas of anti-tumour necrosis factor treatment in inflammatory bowel disease.
Academic Article	Distinct mucosal endotypes as initiators and drivers of rheumatoid arthritis.
Academic Article	Evaluating methods for integrating single-cell data and genetics to understand inflammatory disease complexity.
Academic Article	BuDDI: Bulk Deconvolution with Domain Invariance to predict cell-type-specific perturbations from bulk.
Academic Article	Deep immunophenotyping reveals circulating activated lymphocytes in individuals at risk for rheumatoid arthritis.
Academic Article	CellPhenoX: An eXplainable Cell-specific machine learning method to predict clinical Phenotypes using single-cell multi-omics.
Academic Article	Iterative transcription factor screening enables rapid generation of microglia-like cells from human iPSC.
Academic Article	CellPhenoX: An Explainable Machine Learning Method for Identifying Cell Phenotypes To Predict Clinical Outcomes from Single-Cell Multi-Omics.
Academic Article	Progression to rheumatoid arthritis in at-risk individuals is defined by systemic inflammation and by T and B cell dysregulation.
Academic Article	Longitudinal peripheral blood multi-omic profiling in seropositive individuals identifies immune endotypes and predictive models for future rheumatoid arthritis conversion.
Academic Article	scLASER: a robust framework for simulating and detecting time-dependent single-cell dynamics in longitudinal studies.
Academic Article	SPP1hi macrophages in fibrin niches promote hyperplastic tissue remodeling in rheumatoid arthritis synovium.

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