DBT-NIBMG creates world’s first database of genomic variants of oral cancer
New Delhi: DBT-National Institute of Biomedical Genomics (NIBMG), Kalyani an Autonomous Institute funded by the Department of Biotechnology, Government of India has created a database of genomic variations in oral cancer; the first of its kind in the world. NIBMG has made this database publicly-accessible.
dbGENVOC is a browsable online database of GENomic Variants of Oral Cancer and is a free resource. First release of dbGENVOC contains (i) ~24 million somatic and germline variants derived from whole exome sequences of 100 Indian oral cancer patients and whole genome sequences of 5 oral cancer patients from India, (ii) somatic variation data from 220 patient samples drawn from the USA and analyzed by TCGA-HNSCC project and (iii) manually curated variation data of 118 patients from recently published peer-reviewed publications. Variants were identified by the community approved best practice protocol and annotated using multiple analytic pipeline.
dbGENVOC is not just a catalogue of genomic variants, it has a built-in powerful search engine. It also allows a reasonable extent of statistical and bioinformatic analysis to be carried out online, including identifying variants in associated altered pathways in oral cancer.
The repository, which will be updated annually with variation data from new oral cancer patients from different regions of India and southeast Asia, has the potential to support advances in oral cancer research and will be a major step in moving forward from simply cataloguing variants to gain insight into their significance.
Oral cancer is the most prevalent form of cancer among men in India, largely fuelled by tobacco-chewing. Tobacco-chewing causes changes in the genetic material of cells in the oral cavity. These changes (mutations) precipitate oral cancer. Research to identify those genetic mutations that drive oral cancer are ongoing. Such driver mutations may be variable across populations
The URL for the database, dbGENVOC, is: http://research.nibmg.ac.in/dbcares/dbgenvoc/
Details can be found in:
Pradhan, S., Das, S., Singh, A.K. et al. dbGENVOC: database of GENomic Variants of Oral Cancer, with special reference to India. Database (2021) Vol. 2021: article ID baab034; doi:10.1093/database/baab034
The Department of Biotechnology (DBT), Ministry of Science and Technology, boosts and augments the development of the biotechnology ecosystem in India through its expansion and application in agriculture, healthcare, animal sciences, environment, and industry.
The National Institute of Biomedical Genomics (NIBMG) has been established as an autonomous institution by the Government of India, under the aegis of the Department of Biotechnology. This is the first institution in India explicitly devoted to research, training, translation & service and capacity-building in Biomedical Genomics. It is located in Kalyani, West Bengal, India, near Kolkata.