Vaxrank statistics

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Associated diseases

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Vaxrank specifications

Information


Unique identifier OMICS_18658
Name Vaxrank
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data One or more files containing somatic variants, aligned tumor RNA-seq reads, and the HLA alleles to be used for MHC binding prediction.
Input format VCF, MAF, JSON, BAM
Operating system Unix/Linux
Programming languages Python
License Apache License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Alexander Rubinsteyn <>

Publication for Vaxrank

library_books

Vaxrank: A Computational Tool For Designing Personalized Cancer Vaccines.

2017 BioRxiv
DOI: 10.1101/142919
Alex Rubinsteyn
Alex Rubinsteyn
Alex Rubinsteyn
Alex Rubinsteyn

Vaxrank in publication

PMCID: 5778604
PMID: 29403468
DOI: 10.3389/fimmu.2017.01807

[…] mutation abundance, predict mhc ligands overlapping mutations, and finally to generate a ranked list of candidate vaccine peptides., some of the tools used in vaccine peptide selection include: vaxrank (): overall vaccine selection tool with ranking logic.isovar (): determines mutant protein sequence from somatic variants and tumor rna.varcode (): predicts variant effects for filtering […]


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Vaxrank institution(s)
Department of Genetics and Genomic Sciences at Icahn School of Medicine at Mount Sinai, New York, NY, USA; Department of Microbiology and Immunology, Medical University of South Carolina, Charleston, SC, USA
Vaxrank funding source(s)
Supported by the Icahn Institute and the Parker Institute for Cancer Immunotherapy.

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