TMC-SNPdb: An Indian germline variant dataset derived from whole exome sequence

ABSTRACT: Cancer is predominantly a somatic disease. A mutant allele found in cancer cell genome is considered somatic when it is absent in paired normal genome and dbSNP, the most comprehensive public SNP database. However, dbSNP inadequately represents several non-Caucasian populations including that from the Indian subcontinent, posing a limitation in cancer genomic analyses of data from these populations. We present TMC-SNPdb, as the first open source freely accessible (through ANNOVAR), flexible and upgradable SNP database from whole exome data of 62 normal samples derived from cancer patients of Indian origin, representing 114,309 unique germline variants. TMC-SNPdb is presented with a companion subtraction tool that can be executed with command line option or an easy-to-use graphical user in

INSTRUMENT(S): Illumina HiSeq 1500, Illumina Genome Analyzer IIx, NextSeq 500, Illumina HiSeq 2000

ORGANISM(S): Homo sapiens

SUBMITTER: Amit Dutt 

PROVIDER: E-MTAB-4618 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress