Abstract
We constructed the high-expression ALK activated transport and signal network in human hepatocellular carcinoma (HCC) compared with low-expression (fold change ≥2) no-tumor hepatitis/cirrhotic tissues (HBV or HCV infection) in GEO data set, by using integration of gene regulatory activated and inhibited network inference method with gene ontology (GO) analysis. Our result showed that ALK transport and signal upstream network ECT2, FOLR1, GNAZ, GRM1, ITGA2, LEF1, NR5A1, PTHLH, RIMS3, SORT1, SOX2 activated ALK, and downstream ALK-activated BAP1, CAD, CDH13, CNTNAP2, GRM1, ITGA2, LAPTM4B, MAP2K6, NR5A1, STMN1 in HCC. We obtained that the different biological processes of ALK activated network consisted of folic acid transport, cell surface receptor linked signal transduction, cell-cell signaling, G-protein coupled receptor protein signaling pathway, integrin-mediated signaling pathway, intracellular signaling cascade, low density lipoprotein mediated signaling, Rac protein signal transduction, Rho protein signal transduction in HCC compared with the activated network of no-tumor hepatitis/cirrhotic tissues, as a result of inducing folic acid transport and integrin signal induced-angiogenesis in HCC. Our hypothesis was verified by the different and the same biological processes of ALK activated transport and signal network of HCC compared with the corresponding inhibited network of no-tumor hepatitis/cirrhotic tissues and HCC, respectively.
Highlights
ALK is our identified significant high-expression gene in human hepatocellular carcinoma (HCC) compared with low-expression no-tumor hepatitis/cirrhotic tissues (HBV or HCV infection) from GEO data set GSE10140-10141
We constructed ALK up- and down-stream activated and inhibited transport and signal network in no-tumor hepatitis/cirrhotic tissues and HCC from our total network of 225 significant high-expression molecules from 6,144 genes of 25 HCC compared with 25 no-tumor hepatitis/cirrhotic tissues (HBV or HCV infection) by GRNInfer, respectively
We extracted the biological process of gene ontology (GO) terms and did numbers data analysis of the different biological processes of ALK activated transport and signal network in HCC compared with activated network of no-tumor hepatitis/cirrhotic tissues, the same biological processes of ALK activated transport and signal network in HCC compared with
Summary
ALK is our identified significant high-expression gene in human hepatocellular carcinoma (HCC) compared with low-expression (fold change ≥2) no-tumor hepatitis/cirrhotic tissues (HBV or HCV infection) from GEO data set GSE10140-10141 (http://www.ncbi.nlm. nih.gov/geo/query/acc.cgi?acc=GSE10140, http://www.ncbi.nlm.nih. gov/geo/query/acc.cgi?acc=GSE10141). ALK is our identified significant high-expression gene in human hepatocellular carcinoma (HCC) compared with low-expression (fold change ≥2) no-tumor hepatitis/cirrhotic tissues (HBV or HCV infection) from GEO data set GSE10140-10141 The distinct high-expression ALK folic acid transport and integrin signal induced-angiogenesis network in HCC remains to be elucidated. We constructed the highexpression ALK activated transport and signal network in HCC from GEO data set by gene regulatory network inference method based on linear programming and decomposition procedure
Sign-in/Register to view highlights & summary Sign-in/Register to access full text options 
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callMore From: Molecular Biology : Open Access
Disclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
