Oktoberfest: Open‐source spectral library generation and rescoring pipeline based on Prosit
Abstract Machine learning (ML) and deep learning (DL) models for peptide property
prediction such as Prosit have enabled the creation of high quality in silico reference …
prediction such as Prosit have enabled the creation of high quality in silico reference …
Real-time spectral library matching for sample multiplexed quantitative proteomics
CD McGann, WD Barshop, JD Canterbury… - Journal of Proteome …, 2023 - ACS Publications
Sample multiplexed quantitative proteomics assays have proved to be a highly versatile
means to assay molecular phenotypes. Yet, stochastic precursor selection and precursor …
means to assay molecular phenotypes. Yet, stochastic precursor selection and precursor …
Isobaric labeling: Expanding the breadth, accuracy, depth, and diversity of sample multiplexing
JA Paulo - Proteomics, 2022 - Wiley Online Library
Isobaric labeling has rapidly become a predominant strategy for proteome‐wide abundance
measurements. Coupled to mass spectrometry, sample multiplexing techniques using …
measurements. Coupled to mass spectrometry, sample multiplexing techniques using …
Spectral library search for improved TMTpro labelled peptide assignment in human plasma proteomics
NB Palstrøm, AJ Campbell, CA Lindegaard… - …, 2024 - Wiley Online Library
Clinical biomarker discovery is often based on the analysis of human plasma samples.
However, the high dynamic range and complexity of plasma pose significant challenges to …
However, the high dynamic range and complexity of plasma pose significant challenges to …
Deep Learning-Assisted Analysis of Immunopeptidomics Data
Liquid chromatography-coupled mass spectrometry (LC-MS/MS) is the primary method to
obtain direct evidence for the presentation of disease-or patient-specific human leukocyte …
obtain direct evidence for the presentation of disease-or patient-specific human leukocyte …
Deep Learning Enhances Precision of Citrullination Identification in Human and Plant Tissue Proteomes
W Gabriel, R Meelker Gonzalez, S Laposchan… - bioRxiv, 2024 - biorxiv.org
Citrullination is a critical yet understudied post-translational modification (PTM) implicated in
various biological processes. Exploring its role in health and disease requires a …
various biological processes. Exploring its role in health and disease requires a …