This study compares DDA-MS and DIA-MS for proteomic analysis of lung compartments in beryllium-related disease, finding DIA-MS provides better quantitative completeness and detects more low-abundance proteins.

bioRxiv · Jun 9, 2026 · PreprintSystems Biology

Single Cell Transcriptome Signatures of Sarcoidosis in Lung Immune Cell Populations

Camille M. Moore, Shu‐Yi Liao, Cheyret Wood, Arunangshu Sarkar, Jonathan Cardwell, Kristyn MacPhail, Margaret M. Mroz, Christina Riley, Kara J. Mould, Clara I. Restrepo, Li Li, Lisa A. Maier, Ivana V. Yang

The paper identifies cell-specific molecular changes in sarcoidosis by analyzing single-cell RNA-seq data from lung immune cells, revealing distinct macrophage subpopulations and altered gene expression patterns associated with disease progression.

bioRxiv · Jan 20, 2025 · PreprintGenomics

Multi-Omic Signatures of Sarcoidosis and Progression in Bronchoalveolar Lavage Cells

Iain R. Konigsberg, Nancy W. Lin, Shu‐Yi Liao, Cuining Liu, Kristyn MacPhail, Margaret M. Mroz, Elizabeth Davidson, Clara I. Restrepo, Sunita Sharma, Li Li, Lisa A. Maier, Ivana V. Yang

The paper integrates DNA methylation, mRNA, and miRNA data from bronchoalveolar lavage cells to identify molecular signatures of sarcoidosis and disease progression.

Respiratory Research · Jul 30, 2024Peer-reviewedGenomics