[HTML][HTML] Metabolomics and its applications in cancer cachexia

P Cui, X Li, C Huang, Q Li, D Lin - Frontiers in molecular biosciences, 2022 - frontiersin.org
Cancer cachexia (CC) is a complicated metabolic derangement and muscle wasting
syndrome, affecting 50–80% cancer patients. So far, molecular mechanisms underlying CC …

[HTML][HTML] Clinically relevant post-translational modification analyses—maturing workflows and bioinformatics tools

D Pascovici, JX Wu, MJ McKay, C Joseph… - International journal of …, 2018 - mdpi.com
Post-translational modifications (PTMs) can occur soon after translation or at any stage in
the lifecycle of a given protein, and they may help regulate protein folding, stability, cellular …

[HTML][HTML] MSstatsPTM: statistical relative quantification of posttranslational modifications in bottom-up mass spectrometry-based proteomics

D Kohler, TH Tsai, E Verschueren, T Huang… - Molecular & Cellular …, 2023 - ASBMB
Liquid chromatography coupled with bottom-up mass spectrometry (LC-MS/MS)–based
proteomics is increasingly used to detect changes in posttranslational modifications (PTMs) …

[HTML][HTML] msqrob2PTM: Differential Abundance and Differential Usage Analysis of MS-Based Proteomics Data at the Posttranslational Modification and Peptidoform …

N Demeulemeester, M Gébelin, LC Gomes… - Molecular & Cellular …, 2024 - ASBMB
In the era of open-modification search engines, more post-translational modifications than
ever can be detected by LC-MS/MS-based proteomics. This development can switch …

[HTML][HTML] Discovering the landscape of protein modifications

EK Keenan, DK Zachman, MD Hirschey - Molecular cell, 2021 - cell.com
Protein modifications modulate nearly every aspect of cell biology in organisms, ranging
from Archaea to Eukaryotes. The earliest evidence of covalent protein modifications was …

[HTML][HTML] Genome annotation of a model diatom Phaeodactylum tricornutum using an integrated proteogenomic pipeline

M Yang, X Lin, X Liu, J Zhang, F Ge - Molecular plant, 2018 - cell.com
Diatoms comprise a diverse and ecologically important group of eukaryotic phytoplankton
that significantly contributes to marine primary production and global carbon cycling …

Statistical models for the analysis of isobaric tags multiplexed quantitative proteomics

G D'Angelo, R Chaerkady, W Yu, DB Hizal… - Journal of proteome …, 2017 - ACS Publications
Mass spectrometry is being used to identify protein biomarkers that can facilitate
development of drug treatment. Mass spectrometry-based labeling proteomic experiments …

Conjugation site analysis of antibody-drug-conjugates (ADCs) by signature ion fingerprinting and normalized area quantitation approach using nano-liquid …

H Sang, G Lu, Y Liu, Q Hu, W Xing, D Cui, F Zhou… - Analytica chimica …, 2017 - Elsevier
Abstract Trastuzumab-MCC-DM1 (T-DM1) is an antibody-drug conjugate (ADC) that consists
of a monoclonal antibody (mAb) trastuzumab non-cleavably linked to a cytotoxic drug DM1 …

Post-translational modifications of plant cell wall proteins and peptides: a survey from a proteomics point of view

H Canut, C Albenne, E Jamet - … et Biophysica Acta (BBA)-Proteins and …, 2016 - Elsevier
Plant cell wall proteins (CWPs) and peptides are important players in cell walls contributing
to their assembly and their remodeling during development and in response to …

Flux control through protein phosphorylation in yeast

Y Chen, J Nielsen - Yeast Research, 2016 - academic.oup.com
Protein phosphorylation is one of the most important mechanisms regulating metabolism as
it can directly modify metabolic enzymes by the addition of phosphate groups. Attributed to …