Literature DB >> 32124317

OpenVax: An Open-Source Computational Pipeline for Cancer Neoantigen Prediction.

Julia Kodysh1, Alex Rubinsteyn2.   

Abstract

OpenVax is a computational workflow for identifying somatic variants, predicting neoantigens, and selecting the contents of personalized cancer vaccines. It is a Dockerized end-to-end pipeline that takes as input raw tumor/normal sequencing data. It is currently used in three clinical trials (NCT02721043, NCT03223103, and NCT03359239). In this chapter, we describe how to install and use OpenVax, as well as how to interpret the generated results.

Entities:  

Keywords:  Bioinformatics pipeline; Cancer vaccine; Docker; Immunoinformatics; NGS; Neoantigen

Mesh：

Substances：

Year:  2020        PMID： 32124317     DOI： 10.1007/978-1-0716-0327-7_10

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  4 in total

Review 1.  Computational cancer neoantigen prediction: current status and recent advances.

Authors:  G Fotakis; Z Trajanoski; D Rieder
Journal:  Immunooncol Technol       Date:  2021-11-20

2.  The future of cancer immunotherapy for brain tumors: a collaborative workshop.

Authors:  Christine E Brown; Samantha Bucktrout; Lisa H Butterfield; Olga Futer; Evanthia Galanis; Adilia Hormigo; Michael Lim; Hideho Okada; Robert Prins; Sara Siebel Marr; Kirk Tanner
Journal:  J Transl Med       Date:  2022-05-23       Impact factor: 8.440

Review 3.  T Cell Epitope Prediction and Its Application to Immunotherapy.

Authors:  Anna-Lisa Schaap-Johansen; Milena Vujović; Annie Borch; Sine Reker Hadrup; Paolo Marcatili
Journal:  Front Immunol       Date:  2021-09-15       Impact factor: 7.561

4.  NeoFox: annotating neoantigen candidates with neoantigen features.

Authors:  Franziska Lang; Pablo Riesgo Ferreiro; Martin Löwer; Ugur Sahin; Barbara Schrörs
Journal:  Bioinformatics       Date:  2021-05-10       Impact factor: 6.931
  4 in total

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