Journals Information
Bioengineering and Bioscience(CEASE PUBLICATION) Vol. 4(1), pp. 7 - 10
DOI: 10.13189/bb.2016.040102
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A Bioinformatic Approach to MSI Cancer Research
Nick Napier *, Nico Limogiannis
Department of Computer Science, Wofford College, USA
ABSTRACT
Recent advances in genome sequencing, mRNA expression, and other genomic technologies have resulted in several databases containing a wealth of genomic information鈥攕o much information that much of it remains unexamined. By using the R programming language, databases can be mined to research cancer without the need for experimentation. Using this approach, the mRNA expression of 9,768 known genes was compared between microsatellite stable (MSS) and microsatellite instable (MSI) colorectal cancers. This computational analysis revealed 5,435 genes with a significant difference (p < 0.05) in expression between MSS and MSI forms; many genes showed strongly significant differences (p < 2脳10-15). In addition, a gene expression signature constructed from these differentially-expressed genes predicted MSI-H (but not MSI-L) status in cancer cell lines with 97% accuracy. Finally, our results potentially associate several pathways with MSI cancers. While much future study will be needed to more closely examine these results, the current study demonstrates the use of bioinformatics in making discoveries based upon existing data and in directing the focus of future experiments.
KEYWORDS
Bioinformatics, Colorectal Cancer, MSI, Genomics, Gene Expression
Cite This Paper in IEEE or APA Citation Styles
(a). IEEE Format:
[1] Nick Napier , Nico Limogiannis , "A Bioinformatic Approach to MSI Cancer Research," Bioengineering and Bioscience(CEASE PUBLICATION), Vol. 4, No. 1, pp. 7 - 10, 2016. DOI: 10.13189/bb.2016.040102.
(b). APA Format:
Nick Napier , Nico Limogiannis (2016). A Bioinformatic Approach to MSI Cancer Research. Bioengineering and Bioscience(CEASE PUBLICATION), 4(1), 7 - 10. DOI: 10.13189/bb.2016.040102.