INTEGRATE-neo: A pipeline for personalized gene fusion neoantigen discovery

Jin Zhang; Elaine R. Mardis; Christopher A. Maher

doi:10.1093/bioinformatics/btw674

INTEGRATE-neo: A pipeline for personalized gene fusion neoantigen discovery

Jin Zhang
, Elaine R. Mardis
, Christopher A. Maher

Research output: Contribution to journal › Article › peer-review

105 Scopus citations

Abstract

Motivation: While high-throughput sequencing (HTS) has been used successfully to discover tumor-specific mutant peptides (neoantigens) from somatic missense mutations, the field currently lacks a method for identifying which gene fusions may generate neoantigens. Results: We demonstrate the application of our gene fusion neoantigen discovery pipeline, called INTEGRATE-Neo, by identifying gene fusions in prostate cancers that may produce neoantigens.

Original language	English
Pages (from-to)	555-557
Number of pages	3
Journal	Bioinformatics
Volume	33
Issue number	4
DOIs	https://doi.org/10.1093/bioinformatics/btw674
State	Published - Feb 15 2017

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title = "INTEGRATE-neo: A pipeline for personalized gene fusion neoantigen discovery",

abstract = "Motivation: While high-throughput sequencing (HTS) has been used successfully to discover tumor-specific mutant peptides (neoantigens) from somatic missense mutations, the field currently lacks a method for identifying which gene fusions may generate neoantigens. Results: We demonstrate the application of our gene fusion neoantigen discovery pipeline, called INTEGRATE-Neo, by identifying gene fusions in prostate cancers that may produce neoantigens.",

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AU - Zhang, Jin

AU - Mardis, Elaine R.

AU - Maher, Christopher A.

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N2 - Motivation: While high-throughput sequencing (HTS) has been used successfully to discover tumor-specific mutant peptides (neoantigens) from somatic missense mutations, the field currently lacks a method for identifying which gene fusions may generate neoantigens. Results: We demonstrate the application of our gene fusion neoantigen discovery pipeline, called INTEGRATE-Neo, by identifying gene fusions in prostate cancers that may produce neoantigens.

AB - Motivation: While high-throughput sequencing (HTS) has been used successfully to discover tumor-specific mutant peptides (neoantigens) from somatic missense mutations, the field currently lacks a method for identifying which gene fusions may generate neoantigens. Results: We demonstrate the application of our gene fusion neoantigen discovery pipeline, called INTEGRATE-Neo, by identifying gene fusions in prostate cancers that may produce neoantigens.

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INTEGRATE-neo: A pipeline for personalized gene fusion neoantigen discovery

Abstract

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