M. Kellis

Mature and migratory dendritic cells promote immune infiltration and response to anti-PD-1 checkpoint blockade in metastatic melanoma

The paper identifies a mature dendritic cell subtype associated with improved immune response and prognosis in melanoma patients treated with anti-PD-1 checkpoint inhibitors.

Specific oncogene activation of the cell of origin in mucosal melanoma

This study develops a zebrafish model of mucosal melanoma by activating an oncogene and inactivating tumor suppressors, revealing that internal melanocytes give rise to tumors with distinct transcriptional and chromatin features.

Biophysical characterization of high-confidence, small human proteins

The paper characterizes biophysical properties of small human proteins, finding significant differences compared to larger proteins and providing insights for distinguishing functional from non-coding small open reading frames.

Disrupting CD38-driven T cell dysfunction restores sensitivity to cancer immunotherapy

This study shows that targeting CD38 improves T cell function and restores response to immunotherapy in melanoma models.

An Autoimmune Transcriptional Circuit Driving Foxp3+ Regulatory T cell Dysfunction

This study identifies a primate-specific PRDM1 isoform and its interaction with SGK1 as drivers of Treg dysfunction in autoimmune diseases.

Enhancer Reprogramming in Melanoma Immune Checkpoint Therapy Resistance

The paper identifies enhancer-based biomarkers of resistance to anti-PD-1 therapy in melanoma and suggests enhancer blockade combined with ICB as a potential strategy to improve treatment responses.

Exercise Training Remodels Adipocyte-Specific Extracellular Matrix Proteins and Alters Innervation and Vascularization in Inguinal White Adipose Tissue (iWAT)

This study shows that exercise training remodels iWAT ECM, increases vascularization and innervation, and alters adipocyte subpopulations in male mice.

A partnership of the lipid scramblase XK and of the lipid transfer protein VPS13A at the plasma membrane

This study shows that VPS13A and XK interact at ER-PM contacts, with VPS13A's PH domain binding XK, and suggests this interaction may link lipid transfer to PM lipid scrambling, potentially contributing to neurodegeneration.

Single-cell dissection of obesity-exercise axis in adipose-muscle tissues

This study uses single-cell RNA sequencing to analyze the effects of exercise and diet on adipose and muscle tissues in mice, identifying key cell types and pathways involved in metabolic changes.

Conserved epigenetic regulatory logic infers genes governing cell identity

This study introduces a computational method to identify genetic regulators of cell identity using epigenetic data across diverse species and validates findings with CRISPR experiments.

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

The paper identifies thousands of novel unannotated proteins in cancer that contribute to the MHC I immunopeptidome, expanding potential targets for immunotherapy.

Plasma-derived exosomal analysis and deconvolution enables prediction and tracking of melanoma checkpoint blockade response

This paper uses plasma-derived exosomal RNA to predict and track melanoma response to immune checkpoint inhibitors by analyzing tumor and immune signatures.

Elucidation of Codon Usage Signatures across the Domains of Life

The paper identifies arginine as a major contributor to codon usage bias across domains of life and shows that domain-specific codon bias signatures can classify sequences into their domain with high accuracy.

Pan-cancer screen for mutations in non-coding elements with conservation and cancer specificity reveals correlations with expression and survival

The paper identifies non-coding mutations associated with cancer by analyzing conservation, mutational patterns, and correlations with gene expression and survival across multiple cancer types.