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Whole exome sequencing of DNA purified from colorectal tumors induced by 1% DSS and adjacent colon controls in MLH1-KO mice

ABSTRACT: In the process of searching for tumor-specific mutations to predict neoantigens for cancer immunotherapy in a Lynch Syndrome mouse model, tumorigenesis was induced with 1% DSS in drinking water. DNA was isolated from tumors and colon tissue separately from 4 MLH1-KO mice using the DNeasy Qiagen kit according to the manufacturer's protocol. Purity of the DNA was confirmed to be very high with the NanoDrop before sending samples to Illumina for next generation sequencing with the Agilent SureSelect XT Mouse All Exon kit. Finally, an analysis was performed in which common tumor-specific mutations were processed through in silico antigen prediction software in NetMHC.

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Mus musculus

SUBMITTER: Adam Solomon

PROVIDER: E-MTAB-10962 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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The MLH1 c.-27C>A and c.85G>T variants are borne on a European ancestral haplotype which underlies an autosomal dominant form of MLH1 epimutation.

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2013-04-01 | E-GEOD-45149 | biostudies-arrayexpress

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