Identifying gene modules of thyroid cancer associated with pathological stage by weighted gene co-expression network analysis
GENE
Authors: Tang, Xiaozhun; Huang, Xiaoliang; Wang, Duoping; Yan, Ruogu; Lu, Fen; Cheng, Chen; Li, Yulan; Xu, Jian
Abstract
Thyroid cancer is the most common type of endocrine tumor. The TNM classification remains a standard for treatment determination and predicting prognosis in thyroid cancer. The genes modules associated with the progression of papillary thyroid carcinoma (PTC) were not clear. We applied a weighted gene co-expression network analysis (WGCNA) and differential expression analysis to systematically identified co-expressed gene modules and hub genes associated with PTC progression based on The Cancer Genome Atlas (TCGA) PTC transcriptome sequencing data. An independent validation cohort, GSE27155, was used to evaluate the preservation of gene modules. We identified two co-expressed genes modules associated with progression of PTC. Enrichment analysis indicated that the two modules were enriched in angiogenesis and extracellular matrix organization. DCN, COL1A1, COL1A2, COL5A2 and COL3A1 were hub genes in the co-expressed network. We systematically identified co-expressed gene modules and hub genes associated with PTC progression for the first time, which provided insights into the mechanisms underlying PTC progression and some potential targets for the treatment of PTC.
Theoretical studies of CN+H2(D2) reactions: competition between H(D)-abstractions in H(D) plus HCN(DCN)/HNC(DNC) channels
THEORETICAL CHEMISTRY ACCOUNTS
Authors: Albernaz, Alessandra F.; Barreto, Patricia R. P.
Abstract
The CN+H2 reaction was investigated by considering the two possible channels, H+HCN and H+HNC, taking into account the isotopic effects and with the vibrationally excited states. The frequencies and structures for all species of the CN+H2/D2 reaction were calculated using G3 method for further kinetics calculation. The thermal rate constants were calculated using the conventional transition-state theory (TST) and canonical variational transition-state theory (CVT) by APUAMA code, over the temperature range from 200 to 4000 K. In addition, rate coefficients for vibrationally excited reactants CN (v = 1) or H2 (v = 1) or D2 (v = 1) are presented. The branching ratio for the partitioning into H/D + HCN/DCN or H/D + HNC/DNC has, also, been determined. The results showed that the CN(v=0)+H2(v=0)H+HCN channel is dominant at all range of temperature, while CN<(v=1)+H2(v=0)H+HNC channel is dominant at T 1900 K. The isotopic effects are the same behavior that CN(v=0,1)+H2(v=0,1)H+HCN/HNC reactions. Reasonable agreement was found between the experimental results and the rate constants predicted by conventional transition-state theory, with tunneling correction, using the theoretical transition-state properties.