Studying the coverage of mutated and immunogen regions in gasteric cancer related proteins, using bioinformatic

Abstract

Cancer is a group of diseases caused by aberrant continuously proliferating cells capable of metastasis. Main treatment approaches are surgery, radiotherapy, chemotherapy, and the recently expanding immunotherapeutic approaches. Cancer vaccines are a treatment modality that employs the potential of the immune system to recognize and eliminate tumor cells by unmasking tumor cell antigens and generating an effective anti-tumor immune response with an immune memory capable of preventing metastases formation. Purpose: Studying the coverage of mutated and immunogen regions in gasteric cancer related proteins, using bioinformatic Procedure: At first, from the Clinvar NCBI database, the essential information regarding colorectal, gastric and esophageal cancer related muations were colocted. Afterward, the coding sequence of desired proteins were obtained and based on the mentined mutation, the mutated sequence of each genes and proteins were generated using APE software. To specifying the immunogenic regions in mutated proteins, the propred I & II bioinformatics serevres were used. Formerly, the neuoantigenic regions were determined based on the coverage of the mutated and immunogenic reegions of each proteins. Finally, the neuoantigenic epitopes were screened based on immunogenicity, allergenicity and toxicity using the vaxijen, allertop, and toxin pred web based servers. Findings: Form 546 pathogenic Frameshift & Missense mutations in 42 colorectal, gastric and esophageal cancer related genes; a total of 200 neoantigenes were predicated based on propred I & II databases. Afterward, based on immunogenicity, allergenicity and toxicity screening, a total of 30 neoantigenes for designing the therapeutic vaccine were identified. Conclusion: Based on the obtained results, there are a few mutations are potentionally suitable to be candidates for therapeutic vaccine design. Besides, these mutations can just be used in the people harboring them.