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During the data science age, many people tend to access health concerned information and diagnosis using information technology, including telemedicine. Therefore, many researchers attempting to work with medical experts as well as bioinformatics area. In the bioinformatics field, handling the genomic data of human beings becomes essential such as collecting, storing and processing. Genomic data refers to the genome and DNA data of an organism. Unavoidably, genomic data require huge amount of storage for the customized software to analyze. Recently, genome researchers are rising the alarms over big data.This research papers attempts in significant amount of reduction of data storage by applying data deduplication process in genomic data set. Data deduplication, ‘dedupe’ in short can reduce the amount of storage because of its single instance storage nature.Therefore, data deduplication becomes one of the solutions for optimizing the huge amount of storage spaces for genome storage.We have implemented data deduplication method and applied it to genomic data and the deduplication performed successfully by using secure hash algorithm, B++ tree and sub-file level chunking algorithm. The methods were implemented in integrated approach. The files are separated into different chunks with the help of Two Threshold Two Divisors algorithm and hash function is used to get chunk identifiers. Indexing keys are constructed using the identifiersin B+ tree like index structure.Thissystem can reduce the storage space significantly when there exist duplicated data. The preliminary testing is made using NCBI datasets

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