Comprehensive Evaluation of Protein Coding Mononucleotide Microsatellites in Microsatellite-Unstable Colorectal Cancer

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Kondelin , J , Gylfe , A E , Lundgren , S , Tanskanen , T , Hamberg , J , Aavikko , M , Palin , K , Ristolainen , H , Katainen , R , Kaasinen , E , Taipale , M , Taipale , J , Renkonen-Sinisalo , L , Jarvinen , H , Bohm , J , Mecklin , J-P , Vahteristo , P , Tuupanen , S , Aaltonen , L A & Pitkanen , E 2017 , ' Comprehensive Evaluation of Protein Coding Mononucleotide Microsatellites in Microsatellite-Unstable Colorectal Cancer ' , Cancer Research , vol. 77 , no. 15 , pp. 4078-4088 . https://doi.org/10.1158/0008-5472.CAN-17-0682

Title: Comprehensive Evaluation of Protein Coding Mononucleotide Microsatellites in Microsatellite-Unstable Colorectal Cancer
Author: Kondelin, Johanna; Gylfe, Alexandra E.; Lundgren, Sofie; Tanskanen, Tomas; Hamberg, Jiri; Aavikko, Mervi; Palin, Kimmo; Ristolainen, Heikki; Katainen, Riku; Kaasinen, Eevi; Taipale, Minna; Taipale, Jussi; Renkonen-Sinisalo, Laura; Jarvinen, Heikki; Bohm, Jan; Mecklin, Jukka-Pekka; Vahteristo, Pia; Tuupanen, Sari; Aaltonen, Lauri A.; Pitkanen, Esa
Contributor: University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Medicum
University of Helsinki, Clinicum
University of Helsinki, Heikki Järvinen / Principal Investigator
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
University of Helsinki, Research Programs Unit
Date: 2017-08-01
Language: eng
Number of pages: 11
Belongs to series: Cancer Research
ISSN: 0008-5472
URI: http://hdl.handle.net/10138/297913
Abstract: Approximately 15% of colorectal cancers exhibit microsatellite instability (MSI), which leads to accumulation of large numbers of small insertions and deletions (indels). Genes that provide growth advantage to cells via loss-of-function mutations in micro-satellites are called MSI target genes. Several criteria to define these genes have been suggested, one of them being simple mutation frequency. Microsatellite mutation rate, however, depends on the length and nucleotide context of the microsatellite. Therefore, assessing the general impact of mismatch repair deficiency on the likelihood of mutation events is paramount when following this approach. To identify MSI target genes, we developed a statistical model for the somatic background indel mutation rate of microsatellites to assess mutation significance. Exome sequencing data of 24 MSI colorectal cancers revealed indels at 54 million mononucleotide microsatellites of three or more nucleotides in length. The top 105 microsatellites from 71 genes were further analyzed in 93 additional MSI colorectal cancers. Mutation significance and estimated clonality of mutations determined the most likely MSI target genes to be the aminoadipate-semialdehyde dehydrogenase AASDH and the solute transporter SLC9A8. Our findings offer a systematic profiling of the somatic background mutation rate in protein-coding mononucleotide microsatellites, allowing a full cataloging of the true targets of MSI in colorectal cancer. (C) 2017 AACR.
Subject: REPAIR-DEFICIENT CANCERS
DNA MISMATCH REPAIR
FRAMESHIFT MUTATIONS
TARGET GENES
REPEAT SEQUENCES
INTESTINAL NHE8
BETA-ALANINE
COLON-CANCER
INSTABILITY
EXPRESSION
3122 Cancers
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