MMuFLR: Missense mutation and frameshift location reporter

Susan K. Rathe, James E. Johnson, Kevin A.T. Silverstein, Jesse J. Erdmann, Adrienne L. Watson, Flavia E. Popescu, John R. Ohlfest, David A. Largaespada

Research output: Contribution to journalArticlepeer-review

2 Scopus citations

Abstract

Motivation: Cancer researchers seeking immunotherapy targets in cancer cells need tools to locate highly expressed proteins unique to cancer cells. Missense mutation and frameshift location reporter (MMuFLR), a Galaxy-based workflow, analyzes next-generation sequencing paired read RNA-seq output to reliably identify small frameshift mutations and missense mutations in highly expressed protein-coding genes. MMuFLR ignores known SNPs, low quality reads and poly-A/T sequences. For each frameshift and missense mutation identified, MMuFLR provides the location and sequence of the amino acid substitutions in the novel protein candidates for direct input into epitope evaluation tools.

Original languageEnglish (US)
Pages (from-to)2353-2354
Number of pages2
JournalBioinformatics
Volume29
Issue number18
DOIs
StatePublished - Sep 15 2013

Bibliographical note

Funding Information:
Funding: This work was funded by The Children’s Cancer Research Fund; Children’s Tumor Foundation Young Investigator Award Grant 2011-01-018 (to A.L.W.).

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