Experimental design and data-analysis in label-free quantitative LC/MS proteomics: A tutorial with MSqRob

LJE Goeminne, K Gevaert, L Clement - Journal of proteomics, 2018 - Elsevier
Label-free shotgun proteomics is routinely used to assess proteomes. However, extracting
relevant information from the massive amounts of generated data remains difficult. This …

A potential golden age to come—current tools, recent use cases, and future avenues for de novo sequencing in proteomics

T Muth, F Hartkopf, M Vaudel, BY Renard - Proteomics, 2018 - Wiley Online Library
In shotgun proteomics, peptide and protein identification is most commonly conducted using
database search engines, the method of choice when reference protein sequences are …

Evaluating de novo sequencing in proteomics: already an accurate alternative to database-driven peptide identification?

T Muth, BY Renard - Briefings in bioinformatics, 2018 - academic.oup.com
While peptide identifications in mass spectrometry (MS)-based shotgun proteomics are
mostly obtained using database search methods, high-resolution spectrum data from …

Antioxidative Effects and Mechanism Study of Bioactive Peptides from Defatted Walnut (Juglans regia L.) Meal Hydrolysate

J Sheng, X Yang, J Chen, T Peng, X Yin… - Journal of Agricultural …, 2019 - ACS Publications
The peptide components of defatted walnut (Juglans regia L.) meal hydrolysate (DWMH)
remain unclear, hindering the investigation of biological mechanisms and exploitation of …

Identification of a novel peptide that activates alcohol dehydrogenase from crucian carp swim bladder and how it protects against acute alcohol-induced liver injury in …

Y Shi, F Yu, Y Wu, L Dai, Y Feng, S Chen… - … of Pharmaceutical and …, 2022 - Elsevier
Alcoholism is a severe threat to public health, and there are no adequate treatments for
alcoholic liver disease. The aim of this study was to identify bioactive peptides derived from …

Atmospheric and Room Temperature Plasma (ARTP) Mutagenesis Improved the Anti-MRSA Activity of Brevibacillus sp. SPR20

N Songnaka, M Lertcanawanichakul… - International Journal of …, 2023 - mdpi.com
Brevibacillus sp. SPR20 produced potentially antibacterial substances against methicillin-
resistant Staphylococcus aureus (MRSA). The synthesis of these substances is controlled by …

Identification and enhancement of antioxidant P1-peptide isolated from Ganoderma lucidum hydrolysate

S Krobthong, Y Yingchutrakul - Food Biotechnology, 2020 - Taylor & Francis
Ganoderma lucidum is an edible fungus which typically used in functional food products
because of the potential enhancement of health. Many hydrolysates from G. lucidum exhibit …

Extended Snake Venomics by Top-Down In-Source Decay: Investigating the Newly Discovered Anatolian Meadow Viper Subspecies, Vipera anatolica senliki

BF Hempel, M Damm, Mrinalini… - Journal of proteome …, 2020 - ACS Publications
Herein, we report on the venom proteome of Vipera anatolica senliki, a recently discovered
and hitherto unexplored subspecies of the critically endangered Anatolian meadow viper …

Non-human peptides revealed in blood reflect the composition of intestinal microbiota

GP Arapidi, AS Urban, MS Osetrova, VO Shender… - BMC biology, 2024 - Springer
Background The previously underestimated effects of commensal gut microbiota on the
human body are increasingly being investigated using omics. The discovery of active …

[HTML][HTML] Toxinology in the proteomics era: a review on arachnid venom proteomics

FC Marchi, E Mendes-Silva… - Journal of venomous …, 2022 - SciELO Brasil
The word venomics was coined to acknowledge the studies that use omics to investigate
venom proteins and peptides. Venomics has evolved considerably over the last 20 years …