Myles Lewis

cellGeometry deconvolutes bulk RNA-Seq using geometric methods, offering faster and more accurate results than existing approaches.

This study characterizes B cell receptor repertoires in severe eosinophilic asthma and EGPA, finding increased IgG4 and other subclasses, shared clones, and treatment-related changes.

This study identifies GPR84 as a regulator of immune cell extravasation by enabling uropod de-adhesion during inflammation, showing its role in terminating leukocyte migration.

Perivascular COMPhi fibrogenic fibroblasts expand in treatment-refractory rheumatoid arthritis synovium, where endothelial Notch signaling patterns fibroblast TGF-beta sensitivity via TGFBR3 regulation and persists despite post-treatment immune cell depletion.

This study shows IL-36 promotes monocyte apoptosis and downregulates nucleic acid clearance, leading to self-nucleic acid accumulation and enhanced type-I IFN responses in SLE.

The paper identifies immune endotypes in OA synovial tissue using integrated molecular and spatial profiling to guide precision medicine.

The paper identifies distinct cytokine signaling networks in mouse models of arthritis that mirror human RA synovial pathotypes, revealing molecular mechanisms underlying disease heterogeneity.

multiDEGGs performs differential network analysis across multi-omic data to identify biomarkers and improve predictive modeling in rheumatoid arthritis treatment response.

This study identifies granzyme K as a driver of a novel complement activation pathway independent of classical, lectin, or alternative pathways.

This study identifies the acidic N-terminus and neddylation of HHARI as essential for RIG-I activation and type I interferon signaling.

The paper identifies CRTAM-expressing CD4+ T-cells in lymphoid-driven synovitis and shows that IL-6 and IL-27 inhibit their activation through STAT3 and ZEB1.

The paper identifies analgesic targets in mouse sensory neurons by analyzing translatomes in somata and terminals under different pain conditions.

The paper maps cell-type-specific eQTLs for HLA genes across multiple tissues and identifies dynamic regulation of HLA-DQ genes in immune cells.

BBmix improves genotype calling from RNA-sequencing by modeling RNA-specific biases, achieving higher accuracy in heterozygous calls compared to existing methods.

This study uses gene-gene interaction networks from RNA-Seq data to improve prediction of treatment response in rheumatoid arthritis.

M3C improves consensus clustering by simulating null distributions to reduce bias and false positives in determining the number of clusters.

Spectrum improves clustering speed and performance for single and multi-omic data by using a density-aware kernel and tensor product graph integration.

This study identifies de novo mutations and rare variant burdens in SLE candidate genes, supporting their role in disease pathogenesis.