Genome-Wide Association Study of Smoking Behavior Traits in a Chinese Han Population

Li, Meng; Chen, Ying; Yao, Jianhua; Lu, Sheming; Guan, Ying; Xu, Yuqiong; Liu, Qiang; Sun, Silong; Mi, Qi-Li; Mei, Junpu; Li, Xuemei; Ming-ming, Miao; Zhao, Shancen; Zhu, Zhouhai

doi:10.3389/fpsyt.2020.564239

Cited by 7 publications

(2 citation statements)

References 54 publications

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“…Wang et al ( 36 ) concluded that RFTN1 may be involved in the pathogenesis of glaucoma. Another study suggested that RFTN1 may participate in smoking behavior through modulating immune responses or interactions with glucocorticoid receptor α and androgen receptor ( 37 ). Zhao et al ( 38 ) explored molecular subtypes and core genes for lung adenocarcinoma and screened out two core genes: Contactin 4 (CNTN4) and RFTN1.…”

Section: Discussionmentioning

confidence: 99%

Diagnostic value of abnormal chromosome 3p genes in small‑cell lung cancer

Zhao

et al. 2022

Oncol Lett

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The diagnosis of small cell lung carcinoma (SCLC) remains a great challenge. Changes in chromosome 3p (chr3) genes are usually observed in the pathogenesis of lung cancer, which suggests that these chr3 genes may be a diagnostic marker in the early stage of SCLC. The present study explored the diagnostic value of the chr3 gene in SCLC using Bioinformatics. Furthermore, reverse transcription-quantitative PCR (RT-qPCR) was used to reveal the expression patterns of diagnostic biomarkers in human pulmonary alveolar epithelial cells and in the SCLC cell line NCI-H146. A total of 33 differentially expressed (DE) chr3 genes and 1,156 module genes associated with clinical features of patients with SCLC were identified and functional enrichment analysis indicated that all these genes were significantly enriched in cell cycle terms. The area under the receiver operating characteristic curve demonstrated that the overlapping genes of the DE-chr3 and module genes, namely cell division cycle 25 A (CDC25A), FYVE and coiled-coil domain autophagy adaptor 1 (FYCO1) and lipid raft linker 1 (RFTN1), were relatively accurate in distinguishing normal from SCLC samples, and may thus be considered diagnostic biomarkers. CDC25A was overexpressed in SCLC samples, while FYCO1 and RFTN1 were highly expressed in normal samples, as evidenced by the RT-qPCR results. Single-gene gene set enrichment analysis suggested that the diagnostic biomarkers were significantly associated with cell cycle, ATP-binding cassette transporter, immune cell differentiation, immune response and multiple respiratory disease pathways. Furthermore, a total of 141 drugs were predicted by The Comparative Toxicogenomics Database to be able to modulate the expression of the diagnostic biomarkers, of which 8 drugs were shared among the three aforementioned diagnostic biomarkers. The present study identified three novel and powerful diagnostic biomarkers for SCLC based on chr3 genes. Suggestions for the development and selection of drugs for clinical treatment based on diagnostic biomarkers were also provided.

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Section: Discussionmentioning

confidence: 99%

Diagnostic value of abnormal chromosome 3p genes in small‑cell lung cancer

Zhao

et al. 2022

Oncol Lett

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“…Wang J et al concluded that RFTN1 may be involved with the pathogenesis of glaucoma [36]. Another study showed that RFTN1 may participate in smoking behavior through modulating immune responses or interactions with the glucocorticoid receptor alpha and the androgen receptor [37]. Zhao Y et al explored molecular subtypes and core genes for lung adenocarcinoma and screened out two core genes including CNTN4 and RFTN1.…”

Section: Pharmaceutical Prediction For Regulating the Expression Of Diagnostic Biomarkersmentioning

confidence: 99%

Analysis of Chromosome 3P Genes Associated With Clinical Staging of Small Cell Lung Cancer and Prediction of Targeted Drugs

Ma¹,

Jin²,

Wu³

et al. 2021

Preprint

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BackgroundNowadays, the diagnosis of small-cell lung cancer (SCLC) remains a great challenge. Changes in the chromosome 3p (chr3) gene are usually observed in the pathogenesis of lung cancer, which seems to imply that these chr3 genes may be a diagnostic marker in the early stage of SCLC. MethodsBased on Differentially expressed genes (DEGs) screening analysis, Weighted gene co-expression network analysis, and Receiver operating characteristic (ROC) curves, this study explored the diagnostic value of the chr3 gene obtained from the University of California Santa Cruz Genome Browser Database in SCLC. Meanwhile, quantitative real-time Polymerase Chain Reaction (qRT-PCR) was used to reveal the expression patterns of diagnostic biomarkers in Human pulmonary alveolar epithelial cells and the SCLC cell line NCI-H146. The potential pathways involved in the diagnostic biomarkers were investigated by a single-gene Gene Set Enrichment Analysis (GSEA). Furthermore, drugs regulating the expression levels of diagnostic biomarkers were predicted by the Comparative Toxicogenomics Database (CTD).ResultsWe identified a total of 33 differentially expressed chr3 (DE-chr3) genes and 1156 hub genes associated with clinical features of SCLC, and functional enrichment analysis showed that all of these genes were significantly enriched in the cell cycle terms. Ultimately, the area under curve of the ROC curve demonstrated that the overlapping genes of the DE-chr3 genes and the hub genes, CDC25A, FYCO1, and RFTN1, were relatively accurate in distinguishing normal from SCLC samples, which were considered to be diagnostic biomarkers. CDC25A was overexpressed in SCLC samples, while FYCO1 and RFTN1 were highly expressed in normal samples, as evidenced by qRT-PCR results. Single-gene GSEA showed that diagnostic biomarkers were significantly associated with cell cycle, ABC transporter, immune cell differentiation, immune response, and multiple respiratory disease pathways. Further, a total of 141 drugs were predicted by the CTD to modulate the expression of diagnostic biomarkers, of which 8 drugs were the shared drugs for 3 diagnostic biomarkers.ConclusionsThis project provided 3 novel and powerful diagnostic biomarkers for SCLC based on the chr3 genes. Meanwhile, a guideline for the development and selection of drugs for clinical treatment based on diagnostic biomarkers was also included.

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A Bivariate Twin Study of Lifetime cannabis Initiation and Lifetime Regular Tobacco Smoking Across Three Different Countries

Zellers,

van Dongen,

Maes

et al. 2024

Behav Genet

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Regular cigarette smoking and cannabis consumption are strongly positively related to each other, yet few studies explore their underlying variation and covariation. We evaluated the genetic and environmental decomposition of variance and covariance of these two traits in twin data from three countries with different social norms and legislation. Data from the Netherlands Twin Register, FinnTwin12/16, and the Minnesota Center for Twin Family Research (total N = 21,617) were analyzed in bivariate threshold models of lifetime regular smoking initiation (RSI) and lifetime cannabis initiation (CI). We ran unstratified models and models stratified by sex and country. Prevalence of RSI was lowest in the Netherlands and prevalence of CI was highest in Minnesota. In the unstratified model, genetic (A) and common environmental factors (C) contributed substantially to the liabilities of RSI (A = 0.47, C = 0.34) and CI (A = 0.28, C = 0.51). The two liabilities were significantly phenotypically (rP = 0.56), genetically (rA = 0.74), and environmentally correlated in the unstratified model (rC = 0.47and rE = 0.48, representing correlations between common and unique environmental factors). The magnitude of phenotypic correlation between liabilities varied by country but not sex (Minnesota rP ~ 0.70, Netherlands rP ~ 0.59, Finland rP ~ 0.45). Comparisons of decomposed correlations could not be reliably tested in the stratified models. The prevalence and association of RSI and CI vary by sex and country. These two behaviors are correlated because there is genetic and environmental overlap between their underlying latent liabilities. There is heterogeneity in the genetic architecture of these traits across country.

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Genome-Wide Association Study of Smoking Behavior Traits in a Chinese Han Population

Cited by 7 publications

References 54 publications

Diagnostic value of abnormal chromosome 3p genes in small‑cell lung cancer

Diagnostic value of abnormal chromosome 3p genes in small‑cell lung cancer

Analysis of Chromosome 3P Genes Associated With Clinical Staging of Small Cell Lung Cancer and Prediction of Targeted Drugs

A Bivariate Twin Study of Lifetime cannabis Initiation and Lifetime Regular Tobacco Smoking Across Three Different Countries

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