Open Access

Gene profiling and bioinformatics analyses reveal time course differential gene expression in surgically resected colorectal tissues

  • Authors:
    • Aya Yamagishi
    • Satoshi Matsumoto
    • Atsushi Watanabe
    • Yoshiaki Mizuguchi
    • Keisuke Hara
    • Hayato Kan
    • Takeshi Yamada
    • Michihiro Koizumi
    • Seiichi Shinji
    • Akihisa Matsuda
    • Junpei Sasaki
    • Takashi Shimada
    • Eiji Uchida
  • View Affiliations

  • Published online on: February 24, 2014     https://doi.org/10.3892/or.2014.3053
  • Pages: 1531-1538
  • Copyright: © Yamagishi et al. This is an open access article distributed under the terms of Creative Commons Attribution License [CC BY_NC 3.0].

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Abstract

It has previously been reported that gene profiles in surgically-resected colorectal cancer tissues are altered over time possibly due to the different tissue-acquisition methods and sample extraction timing that were used. However, the changes that occur are still not clearly understood. In the present study, time-dependent changes in gene expression profiling in colorectal surgical specimens were analyzed. Normal and tumor tissues at several time-points (0, 30, 60 and 120 min) were extracted, and RNA quality, microarray experiments, quantitative PCR and bioinformatics clustering were performed. Although RNA integrity was preserved 2 h after resection, inherent increased/decreased gene expression was observed from 30-120 min in approximately 10% of genes. Bioinformatics clustering could not distinguish case-by-case, probably due to gene profiling changes. Irregular changes in gene expression after surgical resection were found, which could be a crucial confounding factor for quantitative analyses.
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2014-April
Volume 31 Issue 4

Print ISSN: 1021-335X
Online ISSN:1791-2431

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Spandidos Publications style
Yamagishi A, Matsumoto S, Watanabe A, Mizuguchi Y, Hara K, Kan H, Yamada T, Koizumi M, Shinji S, Matsuda A, Matsuda A, et al: Gene profiling and bioinformatics analyses reveal time course differential gene expression in surgically resected colorectal tissues. Oncol Rep 31: 1531-1538, 2014
APA
Yamagishi, A., Matsumoto, S., Watanabe, A., Mizuguchi, Y., Hara, K., Kan, H. ... Uchida, E. (2014). Gene profiling and bioinformatics analyses reveal time course differential gene expression in surgically resected colorectal tissues. Oncology Reports, 31, 1531-1538. https://doi.org/10.3892/or.2014.3053
MLA
Yamagishi, A., Matsumoto, S., Watanabe, A., Mizuguchi, Y., Hara, K., Kan, H., Yamada, T., Koizumi, M., Shinji, S., Matsuda, A., Sasaki, J., Shimada, T., Uchida, E."Gene profiling and bioinformatics analyses reveal time course differential gene expression in surgically resected colorectal tissues". Oncology Reports 31.4 (2014): 1531-1538.
Chicago
Yamagishi, A., Matsumoto, S., Watanabe, A., Mizuguchi, Y., Hara, K., Kan, H., Yamada, T., Koizumi, M., Shinji, S., Matsuda, A., Sasaki, J., Shimada, T., Uchida, E."Gene profiling and bioinformatics analyses reveal time course differential gene expression in surgically resected colorectal tissues". Oncology Reports 31, no. 4 (2014): 1531-1538. https://doi.org/10.3892/or.2014.3053