工具箱
基因组学
计算生物学
计算机科学
鉴定(生物学)
DNA测序
生物信息学
基因组
生物
遗传学
基因
植物
程序设计语言
作者
Anas Al-okaily,Anas Al-okaily,Tatiana Shcheglova,Elham Sherafat,Fahad Alqahtani,Adam T. Hagymasi,Anupinder Kaur,Pramod K. Srivastava,Ion Măndoiu
标识
DOI:10.1089/cmb.2022.0491
摘要
High-throughput DNA and RNA sequencing are revolutionizing precision oncology, enabling personalized therapies such as cancer vaccines designed to target tumor-specific neoepitopes generated by somatic mutations expressed in cancer cells. Identification of these neoepitopes from next-generation sequencing data of clinical samples remains challenging and requires the use of complex bioinformatics pipelines. In this paper, we present GeNeo, a bioinformatics toolbox for genomics-guided neoepitope prediction. GeNeo includes a comprehensive set of tools for somatic variant calling and filtering, variant validation, and neoepitope prediction and filtering. For ease of use, GeNeo tools can be accessed via web-based interfaces deployed on a Galaxy portal publicly accessible at https://neo.engr.uconn.edu/. A virtual machine image for running GeNeo locally is also available to academic users upon request.
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