A critical review of bottom-up proteomics: the good, the bad, and the future of this field

EJ Dupree, M Jayathirtha, H Yorkey, M Mihasan… - Proteomes, 2020 - mdpi.com
Proteomics is the field of study that includes the analysis of proteins, from either a basic
science prospective or a clinical one. Proteins can be investigated for their abundance …

Scorpion venom as a source of antimicrobial peptides: overview of biomolecule separation, analysis and characterization methods

S Nasr, A Borges, C Sahyoun, R Nasr, R Roufayel… - Antibiotics, 2023 - mdpi.com
Scorpion venoms have long captivated scientific researchers, primarily due to the potency
and specificity of the mechanism of action of their derived components. Among other …

Pyteomics 4.0: five years of development of a python proteomics framework

LI Levitsky, JA Klein, MV Ivanov… - Journal of proteome …, 2018 - ACS Publications
Many of the novel ideas that drive today's proteomic technologies are focused essentially on
experimental or data-processing workflows. The latter are implemented and published in a …

[HTML][HTML] In-depth metaproteomics analysis of oral microbiome for lung cancer

X Jiang, Y Zhang, H Wang, Z Wang, S Hu, C Cao… - Research, 2022 - spj.science.org
The human oral microbiome correlates with numerous diseases, including lung cancer.
Identifying the functional changes by metaproteomics helps understand the disease-related …

Molecular pathophysiology of diabetes mellitus during pregnancy with antenatal complications

AT Kopylov, O Papysheva, I Gribova, G Kotaysch… - Scientific Reports, 2020 - nature.com
Gestational diabetes mellitus is a daunting problem accompanied by severe fetal
development complications and type 2 diabetes mellitus in postpartum. Diagnosis of …

Mass Spectrometry Acquisition and Fractionation Recommendations for TMT11 and TMT16 Labeled Samples

RM Riley, GL Negri, SWG Cheng… - Journal of Proteome …, 2024 - ACS Publications
Proteome coverage and accurate protein quantification are both important for evaluating
biological systems; however, compromises between quantification, coverage, and mass …

Bioinformatics in Russia: history and present-day landscape

MA Nawaz, IE Pamirsky… - Briefings in …, 2024 - academic.oup.com
Bioinformatics has become an interdisciplinary subject due to its universal role in molecular
biology research. The current status of Russia's bioinformatics research in Russia is not …

A prostate cancer proteomics database for SWATH-MS based protein quantification

A Muazzam, D Chiasserini, J Kelsall, N Geifman… - Cancers, 2021 - mdpi.com
Simple Summary Prostate cancer is the third most frequent cancer in men worldwide, with a
notable increase in prevalence over the past two decades. The PSA is the only well …

Development of a high-pH reversed-phase well plate for peptide fractionation and deep proteome analysis of cells and exosomes

YC Liu, YT Huang, CJ Chen - Analytical and Bioanalytical Chemistry, 2022 - Springer
The complexity of the proteome often limits the number of identified proteins in the nanoflow
LC-MS (nanoLC-MS) analysis of samples. Therefore, peptide fractionation is essential for …

Differential lysis approach enables selective extraction of taxon-specific proteins for gut metaproteomics

J Wang, X Zhang, L Li, Z Ning, J Mayne… - Analytical …, 2020 - ACS Publications
Changes in microbiome composition and function have been linked to human health and
diseases. Metaproteomics provides invaluable functional information on the state of a …