Identification of differentially-expressed genes in lung squamous cell carcinoma and correlation levels with prognosis through integrated bioinformatics analysis
INTERNATIONAL JOURNAL OF CLINICAL AND EXPERIMENTAL MEDICINE
Authors: Zhang, Licui; Zhong, Chen; Gu, Yang; Ma, Yajing; Ming, Xinliang; Su, Xin; Liu, Min
Abstract
Background: The aim of the current study was to screen differentially-expressed genes (DEGs) relevant to cancer progression and prognosis of squamous cell lung carcinoma (SqCLC). Methods: DEGs mRNA expression data of SqCLC was screened from the Oncomine database. This data was further analyzed by comparing tumor tissues to normal tissues. Prognostic values of DEGs relevant to SqCLC were investigated using the "Kaplan-Meier Plotter" (KM plotter) database. Bioinformation for included genes was analyzed by gene GO and KEGG enrichment, aiming to explain the potential roles of identified genes in SqCLC. Protein-protein interaction (PPI) of the genes was evaluated using the STRING database. Results: Four independent microarray datasets relevant to SqCLC were identified in the Oncomine database, with the top 10 consistently upregulated and top 10 consistently downregulated genes included in the present analysis. Significant differences of overall survival (OS) were correlated with SMC4, HIST2H2AA3, GMPS, CKS1B, POLR2H, PDCD10, PLOD2, DVL3, C-type CLEC3B, TNNC1, FAM107A, FYR, MEF2C, SLIT3, CX3CR1, C17orf91, LIM, and LIMCH1 (all P < 0.05). Possible protein-protein interaction analysis of the top 20 dysregulated genes showed that proteins of SMC4, POLR2H, and NCBP2 in upregulated genes and TNNC1 and MEF2C in downregulated genes interacted with more than 5 other proteins. This may play an important role in the development of SqCLC. Conclusion: MC4, POLR2H. TNNC1, and MEF2C genes were dysregulated in SqCLC. Thus, they may play an essential role in the development of SqCLC, as biomarkers for patient prognosis.
Mapping TNNC1, the gene that encodes cardiac troponin I in the human and the mouse
GENOMICS
Authors: Bermingham, N; Hernandez, D; Balfour, A; Gilmour, F; Martin, JE; Fisher, EMC
Abstract
We have mapped the TNNC1 gene, whose protein product is the cardiac TnI protein. TnI is one of the proteins that makes up the troponin complex, which mediates the response of muscle to calcium ions. The human TNNC1 locus had been assigned to a large region of chromosome 19, and we have refined the mapping position to the distal end of the chromosome by amplification of DNAs from a chromosome 19 mapping panel. We have also mapped the mouse Tnnc1 locus, by following the segregation of an intron sequence through DNAs from the European Interspecific Backcross. Tnnc1 maps close to the centromere on mouse chromosome 7. (C) 1995 Academic Press, Inc.