A. J. Butte

Deciphering Cell-types and Gene Signatures Associated with Disease Activity in Rheumatoid Arthritis using Single Cell RNA-sequencing

This study uses single-cell RNA sequencing of PBMCs from RA patients and controls to identify disease-associated cell subsets and gene signatures linked to RA disease activity.

Deep learning from multiple experts improves identification of amyloid neuropathologies

The paper develops a deep learning model that combines multiple expert annotations to improve the identification of amyloid neuropathologies, achieving consistent diagnoses across varying expert opinions.

Trans-channel fluorescence learning improves high-content screening for Alzheimer's disease therapeutics

This paper introduces a deep learning method to improve high-content screening for Alzheimer's disease therapeutics by generating predicted fluorescent signals from alternative markers.

Mammary ductal epithelium controls cold-induced adipocyte thermogenesis

The paper shows that mammary ductal epithelial cells regulate cold-induced adipocyte thermogenesis via secreted factors called mammokines in female mice.

EpiSort: Enumeration of cell types using targeted bisulfite sequencing

EpiSort uses targeted bisulfite sequencing to accurately enumerate 23 cell types in tumors, offering a new approach for cancer microenvironment analysis.

Reference-based annotation of single-cell transcriptomes identifies a profibrotic macrophage niche after tissue injury

The paper uses scRNA-seq to identify a profibrotic macrophage subtype in injured lung tissue, showing its role in fibrosis and potential as a therapeutic target.

The 10,000 Immunomes Project: A resource for human immunology

The 10,000 Immunomes Project provides a diverse human immunology reference from 44,000 individuals, enabling analysis of immune variations by age, race, and sex, and serving as a common control for immunological studies.