Maggie P. Y. Lam

Subcellular spatiotemporal proteomics delineates distinct phases of ER stress proteostatic response

This study uses SPLAT-TR to analyze proteome changes in ER stress, revealing distinct temporal phases of protein translocation, clearance, and degradation in different organelles.

Tracking cellular biomolecular condensate dynamics under proteostatic stress with middle-down phosphoproteomics

This study uses middle-down phosphoproteomics to analyze how protein partitioning into biomolecular condensates changes under proteostatic stress, revealing phosphorylation-dependent and independent mechanisms.

Micro- and macro- heterogeneity of N-glycoproteome remodeling in endoplasmic reticulum stress

The paper develops an mPBA enrichment workflow to analyze N-glycoproteome remodeling under ER stress, revealing dynamic changes in glycosylation sites and glycoforms.

Proteogenomic analysis of the differential stability of cardiac protein isoforms

The paper investigates the differential stability of cardiac protein isoforms using proteogenomics and heavy water-based turnover analysis in mouse hearts, revealing widespread stability differences.

SALVE: prediction of interorgan communication with transcriptome latent space representation

SALVE predicts interorgan communication by analyzing RNA-seq data to link secretome-encoding transcripts with gene modules in distal organs, identifying new candidate organokines and their signaling mechanisms.

A Ratiometric Catalog of Protein Isoform Shifts in the Cardiac Fetal Gene Program

The paper identifies widespread isoform usage shifts in fetal and postnatal mouse hearts using proteome-wide ratio quantification, revealing novel isoform switches and evolutionary patterns.

Deuterium labeling enables proteome wide turnover kinetics analysis in cell culture

This study uses deuterium labeling to analyze protein turnover kinetics in hiPSCs and identifies fast-turnover proteins involved in cell division and differentiation.

Improved determination of protein turnover rate with heavy water labeling by mass isotopomer ratio selection

This paper introduces a method to improve protein turnover rate calculation using heavy water labeling and mass spectrometry, increasing coverage of well-fitted peptides by 25-82% in mouse organ proteomes.

Protein prediction models support widespread post-transcriptional regulation of protein abundance by interacting partners

The paper shows that protein abundance is often poorly predicted from mRNA levels and that interacting proteins' transcripts better predict protein abundance.

Splice junction-centric approach to identify translated noncanonical isoforms in the human proteome

The paper identifies translated noncanonical isoforms in the human proteome using a splice junction-centric approach and mass spectrometry data.

Dynamic chromatin targeting of BRD4 stimulates cardiac fibroblast activation

This study shows BRD4 promotes cardiac fibrosis by dynamically targeting chromatin and activating gene expression in fibroblasts, revealing a signaling pathway involved in heart failure.

Identifying high-priority proteins across the human diseasome using semantic similarity

The paper identifies high-priority proteins across the human diseasome using semantic similarity and provides a systematic collection of popular proteins across diseases, phenotypes, and pathways.