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345 results found

HLA autoimmune risk alleles restrict the hypervariable region of T cell receptors

Publication: Journal Article

Ishigaki, Lagattuta, Luo, James, Buckner, and Raychaudhuri. 2020. “HLA Autoimmune Risk Alleles Restrict the Hypervariable Region of T Cell Receptors.”

IFN-γ and TNF-α drive a CXCL10+ CCL2+ macrophage phenotype expanded in severe COVID-19 lungs and inflammatory diseases with tissue inflammation

Publication: Journal Article

Zhang, Mears, Shakib, Beynor, Shanaj, Korsunsky, Nathan, AMP Consortium, Donlin, and Raychaudhuri. 2021. “IFN-γ and TNF-α Drive a CXCL10+ CCL2+ Macrophage Phenotype Expanded in Severe COVID-19 Lungs and Inflammatory Diseases With Tissue Inflammation”. Genome Med 13 (1): 64.

Population-specific causal disease effect sizes in functionally important regions impacted by selection

Publication: Journal Article

Shi, Gazal, Kanai, Koch, Schoech, Siewert, Kim, et al. 2021. “Population-Specific Causal Disease Effect Sizes in Functionally Important Regions Impacted by Selection”. Nat Commun 12 (1): 1098.

Cross-tissue, single-cell stromal atlas identifies shared pathological fibroblast phenotypes in four chronic inflammatory diseases

Publication: Journal Article

Korsunsky, Ilya, Kevin Wei, Mathilde Pohin, Edy Kim, Francesca Barone, Triin Major, Emily Taylor, et al. 2022. “Cross-Tissue, Single-Cell Stromal Atlas Identifies Shared Pathological Fibroblast Phenotypes in Four Chronic Inflammatory Diseases”. Med (N Y) 3 (7): 481-518.e14.

Single-cell eQTL models reveal dynamic T cell state dependence of disease loci

Publication: Journal Article

Nathan, Aparna, Samira Asgari, Kazuyoshi Ishigaki, Cristian Valencia, Tiffany Amariuta, Yang Luo, Jessica Beynor, et al. 2022. “Single-Cell EQTL Models Reveal Dynamic T Cell State Dependence of Disease Loci”. Nature 606 (7912): 120-28.

Rheumatoid Arthritis Synovial Inflammation Quantification Using Computer Vision

Publication: Journal Article

Guan, Steven, Bella Mehta, David Slater, James Thompson, Edward DiCarlo, Tania Pannellini, Diyu Pearce-Fisher, et al. 2022. “Rheumatoid Arthritis Synovial Inflammation Quantification Using Computer Vision”. ACR Open Rheumatol 4 (4): 322-31.

Dana Macfarlane

Person: Technical Research Assistant

I graduated with my BA from Temple University in 2018 and moved to Boston in the fall of 2018. At first, I worked in the prominent biotech industry area in Cambridge, but joined the Raychaudhuri lab in the fall of 2019 for better academic opportunity. I work mainly alongside Yuriy on projects...

Aparna Nathan

Person: Research Associate, Department of Biomedical Informatics, Harvard Medical School

I am a research associate at Harvard, and recently completed my PhD in Bioinformatics and Integrative Genomics in Raychaudhuri Lab. My dissertation focused on the integration of multimodal T cell data—RNA, surface proteins, genetics—to better understand their roles in infectious and autoimmune...

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