Identification of non-canonical peptides with moPepGen

IF 33.1 1区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Nature biotechnology Pub Date : 2025-06-16 DOI:10.1038/s41587-025-02701-0

Chenghao Zhu, Lydia Y. Liu, Annie Ha, Takafumi N. Yamaguchi, Helen Zhu, Rupert Hugh-White, Julie Livingstone, Yash Patel, Thomas Kislinger, Paul C. Boutros

引用次数: 0

Abstract

Proteogenomics is limited by the challenge of modeling the complexities of gene expression. We create moPepGen, a graph-based algorithm that comprehensively generates non-canonical peptides in linear time. moPepGen works with multiple technologies, in multiple species and on all types of genetic and transcriptomic data. In human cancer proteomes, it enumerates previously unobservable noncanonical peptides arising from germline and somatic genomic variants, noncoding open reading frames, RNA fusions and RNA circularization.

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用moPepGen鉴定非规范肽

蛋白质基因组学受到基因表达复杂性建模挑战的限制。我们创建了moPepGen，这是一种基于图的算法，可以在线性时间内全面生成非规范肽。moPepGen采用多种技术，在多个物种和所有类型的遗传和转录组数据上工作。在人类癌症蛋白质组中，它列举了以前无法观察到的非规范肽，这些非规范肽来自种系和体细胞基因组变异、非编码开放阅读框、RNA融合和RNA循环。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Nature biotechnology 工程技术-生物工程与应用微生物

CiteScore

63.00

自引率

1.70%

发文量

382

审稿时长

3 months

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