Yansheng Liu

TL;DR: It is concluded that transcript levels by themselves are not sufficient to predict protein levels in many scenarios and to thus explain genotype-phenotype relationships and that high-quality data quantifying different levels of gene expression are indispensable for the complete understanding of biological processes.

TL;DR: The first proteogenomic characterization of hepatitis B virus-related hepatocellular carcinoma using paired tumor and adjacent liver tissues from 159 patients provides a valuable resource that significantly expands the knowledge of HBV-related HCC and may eventually benefit clinical practice.

TL;DR: In this paper, the authors present a compendium of highly specific assays covering more than 10,000 human proteins and enabling their targeted analysis in SWATH-MS datasets acquired from research or clinical specimens.

TL;DR: This study demonstrates that the acquisition of reproducible quantitative proteomics data by multiple labs is achievable, and broadly serves to increase confidence in SWATH-mass spectrometry data acquisition as a reproducible method for large-scale protein quantification.

TL;DR: The highly accurate and reproducible SWATH mass spectrometry technique is applied to quantify 1,904 peptides defining 342 unique plasma proteins in 232 plasma samples collected longitudinally from pairs of monozygotic and dizygotic twins and identified 13 cis‐SNPs significantly influencing the level of specific plasma proteins.