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BamQuery: a proteogenomic tool to explore the immunopeptidome and prioritize actionable tumor antigens

التفاصيل البيبلوغرافية
العنوان: BamQuery: a proteogenomic tool to explore the immunopeptidome and prioritize actionable tumor antigens
المؤلفون: Maria Virginia Ruiz Cuevas, Marie-Pierre Hardy, Jean-David Larouche, Anca Apavaloaei, Eralda Kina, Krystel Vincent, Patrick Gendron, Jean-Philippe Laverdure, Chantal Durette, Pierre Thibault, Sébastien Lemieux, Claude Perreault, Grégory Ehx
المصدر: Genome Biology, Vol 24, Iss 1, Pp 1-33 (2023)
بيانات النشر: BMC, 2023.
سنة النشر: 2023
المجموعة: LCC:Biology (General)
LCC:Genetics
مصطلحات موضوعية: Immunopeptidome, Computational biology, Major histocompatibility complex, Tumor antigens, Biology (General), QH301-705.5, Genetics, QH426-470
الوصف: Abstract MHC-I-associated peptides deriving from non-coding genomic regions and mutations can generate tumor-specific antigens, including neoantigens. Quantifying tumor-specific antigens’ RNA expression in malignant and benign tissues is critical for discriminating actionable targets. We present BamQuery, a tool attributing an exhaustive RNA expression to MHC-I-associated peptides of any origin from bulk and single-cell RNA-sequencing data. We show that many cryptic and mutated tumor-specific antigens can derive from multiple discrete genomic regions, abundantly expressed in normal tissues. BamQuery can also be used to predict MHC-I-associated peptides immunogenicity and identify actionable tumor-specific antigens de novo.
نوع الوثيقة: article
وصف الملف: electronic resource
اللغة: English
تدمد: 1474-760X
Relation: https://doaj.org/toc/1474-760X
DOI: 10.1186/s13059-023-03029-1
URL الوصول: https://doaj.org/article/23d904d29bc341d1bcfd3983798d9305
رقم الأكسشن: edsdoj.23d904d29bc341d1bcfd3983798d9305
قاعدة البيانات: Directory of Open Access Journals
الوصف
تدمد:1474760X
DOI:10.1186/s13059-023-03029-1