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Cancers 2015, 7(2), 1037-1051; doi:10.3390/cancers7020823

Exploring the Mechanisms of Gastrointestinal Cancer Development Using Deep Sequencing Analysis

Department of Gastroenterology and Hepatology, Graduate School of Medicine, Kyoto University, 54 Shogoin-Kawahara-cho, Sakyo-ku, Kyoto 606-8507, Japan
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Author to whom correspondence should be addressed.
Academic Editors: Camile S. Farah and William Chi-shing Cho
Received: 21 April 2015 / Accepted: 8 June 2015 / Published: 15 June 2015
(This article belongs to the Special Issue Next Generation Sequencing Approaches in Cancer)
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Abstract

Next-generation sequencing (NGS) technologies have revolutionized cancer genomics due to their high throughput sequencing capacity. Reports of the gene mutation profiles of various cancers by many researchers, including international cancer genome research consortia, have increased over recent years. In addition to detecting somatic mutations in tumor cells, NGS technologies enable us to approach the subject of carcinogenic mechanisms from new perspectives. Deep sequencing, a method of optimizing the high throughput capacity of NGS technologies, allows for the detection of genetic aberrations in small subsets of premalignant and/or tumor cells in noncancerous chronically inflamed tissues. Genome-wide NGS data also make it possible to clarify the mutational signatures of each cancer tissue by identifying the precise pattern of nucleotide alterations in the cancer genome, providing new information regarding the mechanisms of tumorigenesis. In this review, we highlight these new methods taking advantage of NGS technologies, and discuss our current understanding of carcinogenic mechanisms elucidated from such approaches. View Full-Text
Keywords: mutational signature; deep sequencing; next-generation sequencing; inflammation-associated carcinogenesis; activation-induced cytidine deaminase; AID; APOBEC; transition; transversion; noncancerous tissues mutational signature; deep sequencing; next-generation sequencing; inflammation-associated carcinogenesis; activation-induced cytidine deaminase; AID; APOBEC; transition; transversion; noncancerous tissues
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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Matsumoto, T.; Shimizu, T.; Takai, A.; Marusawa, H. Exploring the Mechanisms of Gastrointestinal Cancer Development Using Deep Sequencing Analysis. Cancers 2015, 7, 1037-1051.

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