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A Platform for Designing Genome-Based Personalized Immunotherapy or Vaccine against Cancer

Sudheer Gupta1, Kumardeep Chaudhary1, Sandeep Kumar Dhanda1

  • 1Bioinformatics Centre, CSIR-Institute of Microbial Technology, Chandigarh-160036, India.

Plos One
|November 11, 2016
PubMed

Insights

Cancertope is a new platform for designing cancer immunotherapies and vaccines using genomic data. It features a database of cancer neoepitopes and tools for personalized neoepitope prediction from patient genomes.

Area of Science:

  • Genomics
  • Immunoinformatics
  • Cancer Research

Background:

  • Advancements in sequencing technology have generated vast cancer genomic data.
  • Identifying cancer-specific neoepitopes is crucial for immunotherapy and vaccine development.

Purpose of the Study:

  • To introduce Cancertope, a platform for designing genome-based cancer immunotherapies and vaccines.
  • To provide tools for neoepitope identification from cancer genomes.

Main Methods:

  • Development of a cancer-specific neoepitope database from 905 cancer cell lines.
  • Implementation of a partially personalized module for predicting neoepitopes from user-specific cancer genomes.
  • Creation of a fully personalized module for identifying neoepitopes from patient-specific cancer and healthy cell genomes.

Main Results:

  • The platform integrates a comprehensive database of diverse neoepitopes (B-cell, CD8+ T-cell, HLA class I, HLA class II) against 60 cancer antigens.
  • It offers predictive modules for both partially and fully personalized neoepitope identification.
  • Tools for screening epitopes against the human reference proteome are included.

Conclusions:

  • Cancertope provides a valuable resource for the scientific community in the field of cancer immunotherapy and vaccine design.
  • The platform facilitates the identification and design of personalized cancer vaccines based on genomic data.

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