Korean J Phys Anthropol.  2017 Sep;30(3):77-85. 10.11637/kjpa.2017.30.3.77.

Signature Genes in Macrodactyly through Transcriptome Network Analysis Reveal their Association of Lipid Metabolism

• Choi JW
• Lee HJ
• Oh JW

• KMID: 2392273
• DOI: http://doi.org/10.11637/kjpa.2017.30.3.77

Abstract

Macrodactyly is one of the most difficult hand anomalies to treat not only surgically but medically as well. Little is known about the molecular pathways and lipid metabolism of this disease. To elucidate the potential mechanism of macrodactyly progress, we used the bioinformatical analysis including quantile normalization, principal component analysis, heatmap and volcano plot. For the functional bioinformatical study, lipid, lipoprotein and phospholipid metabolism of Kyoto Encyclopedia of Genes and Genomes, Wiki Pathways, and Reactome Pathway were utilized to compare the differentially expressed genes in macrodactyly with control group. We found up-regulation of CDK6 and E2F1, which are associated with the mitotic cell cycle of cancer cells. PIK3CG, associated with cancer and lipid metabolism, was also enriched in macrodactyly. In down-regulated genes, PTEN was highlighted in lipid metabolism, phosphatidylinositol signaling system and insulin signaling. ABCD3, related in peroxisomal import of fatty acids, was also down-regulated. In this study, we predicted the pathogenic candidate genes as well as the potential molecular pathways related to macrodactyly by identifying the signature genes. Signature genes through systems bioinformatical analysis can be utilized to catch the insight of the molecular pathogenesis of macrodactyly.

Keyword

Macrodactyly; Gigantism; Computational biology; Lipid metabolism

MeSH Terms

Cell Cycle
Computational Biology
Fatty Acids
Genome
Gigantism
Hand
Insulin
Lipid Metabolism*
Lipoproteins
Metabolism
Phosphatidylinositols
Principal Component Analysis
Transcriptome*
Up-Regulation
Fatty Acids
Insulin
Lipoproteins
Phosphatidylinositols