@inbook{4c65fbe1864848bcb662a5613dbad9fc,
title = "Enhancing Mass Spectrometry-Based MHC-I Peptide Identification Through a Targeted Database Search Approach",
abstract = "MHC-bound peptide ligands dictate the activation and specificity of CD8+ T- cells-based and thus are important for devising T-cell immunotherapies. In recent times, advances in mass spectrometry (MS) have enabled the precise identification of these peptides, wherein MS/MS spectra are compared against a reference proteome. Unfortunately, matching immunopeptide MS/MS to reference proteome databases is hindered by inflated search spaces attributed to the number of matches that need to be considered due to a lack of enzyme restriction. These large search spaces limit the efficiency with which MHC-I peptides are identified. Here we offer a solution to this problem whereby we describe a targeted database search approach and accompanying tool SpectMHC that is based on a priori predicted MHC-I peptides (Murphy et al., J Proteome Res 16:1806-1816, 2017).",
keywords = "Bioinformatics, Immuno-informatics, MHC ligandome, MHC peptides, Mass spectrometry, NetMHC, SpectMHC",
author = "Prathyusha Konda and Murphy, {J. Patrick} and Morten Nielsen and Shashi Gujar",
year = "2019",
doi = "10.1007/978-1-4939-9597-4_19",
language = "English",
isbn = "978-1-4939-9596-7",
volume = "2024",
series = "Methods in Molecular Biology",
publisher = "Springer",
pages = "301--307",
editor = "Fulton, {Kelly M.} and Twine, {Susan M.}",
booktitle = "Immunoproteomics: Methods and protocols",
}