[HTML][HTML] Strategies in 'snake venomics' aiming at an integrative view of compositional, functional, and immunological characteristics of venoms
This work offers a general overview on the evolving strategies for the proteomic analysis of
snake venoms, and discusses how these may be combined through diverse experimental …
snake venoms, and discusses how these may be combined through diverse experimental …
A high-speed search engine pLink 2 with systematic evaluation for proteome-scale identification of cross-linked peptides
We describe pLink 2, a search engine with higher speed and reliability for proteome-scale
identification of cross-linked peptides. With a two-stage open search strategy facilitated by …
identification of cross-linked peptides. With a two-stage open search strategy facilitated by …
A potential golden age to come—current tools, recent use cases, and future avenues for de novo sequencing in proteomics
In shotgun proteomics, peptide and protein identification is most commonly conducted using
database search engines, the method of choice when reference protein sequences are …
database search engines, the method of choice when reference protein sequences are …
Mitigating the missing-fragmentation problem in de novo peptide sequencing with a two-stage graph-based deep learning model
Novel protein discovery and immunopeptidomics depend on highly sensitive de novo
peptide sequencing with tandem mass spectrometry. Despite notable improvement using …
peptide sequencing with tandem mass spectrometry. Despite notable improvement using …
A Handle on Mass Coincidence Errors in De Novo Sequencing of Antibodies by Bottom-up Proteomics
D Schulte, J Snijder - Journal of Proteome Research, 2024 - ACS Publications
Antibody sequences can be determined at 99% accuracy directly from the polypeptide
product by using bottom-up proteomics techniques. Sequencing accuracy at the peptide …
product by using bottom-up proteomics techniques. Sequencing accuracy at the peptide …
pNovo 3: precise de novo peptide sequencing using a learning-to-rank framework
H Yang, H Chi, WF Zeng, WJ Zhou, SM He - Bioinformatics, 2019 - academic.oup.com
Motivation De novo peptide sequencing based on tandem mass spectrometry data is the key
technology of shotgun proteomics for identifying peptides without any database and …
technology of shotgun proteomics for identifying peptides without any database and …
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 …
remain unclear, hindering the investigation of biological mechanisms and exploitation of …
Methods for proteogenomics data analysis, challenges, and scalability bottlenecks: a survey
Big Data Proteogenomics lies at the intersection of high-throughput Mass Spectrometry (MS)
based proteomics and Next Generation Sequencing based genomics. The combined and …
based proteomics and Next Generation Sequencing based genomics. The combined and …
Deep time paleoproteomics: Looking forward
The goal of paleoproteomics is to characterize proteins from specimens that have been
subjected to the degrading and obscuring effects of time, thus obtaining biological …
subjected to the degrading and obscuring effects of time, thus obtaining biological …
Highly Robust de Novo Full-Length Protein Sequencing
ZB Mai, ZH Zhou, QY He, G Zhang - Analytical chemistry, 2022 - ACS Publications
Accurate full-length sequencing of a purified unknown protein is still challenging nowadays
due to the error-prone mass-spectrometry (MS)-based methods. De novo identified peptide …
due to the error-prone mass-spectrometry (MS)-based methods. De novo identified peptide …