[HTML][HTML] Acquisition and analysis of DIA-based proteomic data: A comprehensive survey in 2023

R Lou, W Shui - Molecular & Cellular Proteomics, 2024 - Elsevier
Data-independent acquisition (DIA) mass spectrometry (MS) has emerged as a powerful
technology for high-throughput, accurate, and reproducible quantitative proteomics. This …

Advances in data‐independent acquisition mass spectrometry towards comprehensive digital proteome landscape

RB Kitata, JC Yang, YJ Chen - Mass spectrometry reviews, 2023 - Wiley Online Library
The data‐independent acquisition mass spectrometry (DIA‐MS) has rapidly evolved as a
powerful alternative for highly reproducible proteome profiling with a unique strength of …

Prospective observational study on biomarkers of response in pancreatic ductal adenocarcinoma

L Jiang, J Qin, Y Dai, S Zhao, Q Zhan, P Cui, L Ren… - Nature Medicine, 2024 - nature.com
Adjuvant chemotherapy benefits patients with resected pancreatic ductal adenocarcinoma
(PDAC), but the compromised physical state of post-operative patients can hinder …

[HTML][HTML] Structures of sperm flagellar doublet microtubules expand the genetic spectrum of male infertility

L Zhou, H Liu, S Liu, X Yang, Y Dong, Y Pan, Z **ao… - Cell, 2023 - cell.com
Sperm motility is crucial for successful fertilization. Highly decorated doublet microtubules
(DMTs) form the sperm tail skeleton, which propels the movement of spermatozoa. Using …

Deep learning in proteomics

B Wen, WF Zeng, Y Liao, Z Shi, SR Savage… - …, 2020 - Wiley Online Library
Proteomics, the study of all the proteins in biological systems, is becoming a data‐rich
science. Protein sequences and structures are comprehensively catalogued in online …

Alzheimer's disease early diagnostic and staging biomarkers revealed by large-scale cerebrospinal fluid and serum proteomic profiling

QQ Tao, X Cai, YY Xue, W Ge, L Yue, XY Li, RR Lin… - The Innovation, 2024 - cell.com
Amyloid-β, tau pathology, and biomarkers of neurodegeneration make up the core
diagnostic biomarkers of Alzheimer disease (AD). However, these proteins represent only a …

High-throughput proteomic sample preparation using pressure cycling technology

X Cai, Z Xue, C Wu, R Sun, L Qian, L Yue, W Ge, X Yi… - Nature …, 2022 - nature.com
High-throughput lysis and proteolytic digestion of biopsy-level tissue specimens is a major
bottleneck for clinical proteomics. Here we describe a detailed protocol of pressure cycling …

A data-independent acquisition-based global phosphoproteomics system enables deep profiling

RB Kitata, WK Choong, CF Tsai, PY Lin… - Nature …, 2021 - nature.com
Phosphoproteomics can provide insights into cellular signaling dynamics. To achieve deep
and robust quantitative phosphoproteomics profiling for minute amounts of sample, we here …

A circulating extracellular vesicles‐based novel screening tool for colorectal cancer revealed by shotgun and data‐independent acquisition mass spectrometry

X Zheng, K Xu, B Zhou, T Chen… - Journal of …, 2020 - Wiley Online Library
Background: Early screening for colorectal cancer (CRC) is essential to improve its
prognosis. Liquid biopsies are increasingly being considered for diagnosing cancer due to …

Structure of the activated human minor spliceosome

R Bai, R Wan, L Wang, K Xu, Q Zhang, J Lei, Y Shi - Science, 2021 - science.org
INTRODUCTION Precursor messenger RNA (pre-mRNA) splicing, which involves the
removal of noncoding introns and the ligation of the coding exons, is achieved by the …