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| 1 | Metformin inhibits pancreatic cancer metastasis caused by SMAD4 deficiency and consequent HNF4G upregulation显示文摘Pancreatic ductal adenocarcinoma(PDAC)has poor prognosis due to limited therapeutic options.This study examines the roles of genome-wide association study identified PDAC-associated genes as therapeutic targets.We have identified HNF4G gene whose silencing most effectively repressed PDAC cell invasiveness.HNF4G overexpression is induced by the deficiency of transcriptional factor and tumor suppressor SMAD4.Increased HNF4G are correlated with SMAD4 deficiency in PDAC tumor samples and associated with metastasis and poor survival time in xenograft animal model and in patients with PDAC(log-rank P=0.036;HR=1.60,95%CI=1.03–2.47).We have found that Metformin suppresses HNF4G activity via AMPK-mediated phosphorylation-coupled ubiquitination degradation and inhibits in vitro invasion and in vivo metastasis of PDAC cells with SMAD4 deficiency.Furthermore,Metformin treatment significantly improve clinical outcomes and survival in patients with SMAD4-deficient PDAC(log-rank P=0.022;HR=0.31,95%CI=0.14–0.68)but not in patients with SMAD4-normal PDAC.Pathway analysis shows that HNF4G may act in PDAC through the cell-cell junction pathway.These results indicate that SMAD4 deficiency-induced overexpression of HNF4G plays a critical oncogenic role in PDAC progression and metastasis but may form a druggable target for Metformin treatment. | Chengcheng Wang Taiping Zhang Quan Liao Menghua Dai Junchao Guo Xinyu Yang Wen Tan Dongxin Lin Chen Wu Yupei Zhao | 2021 | Protein & Cell2021，12，2： | 5 |
| 2 | Multi-omic characterization of genome-wide abnormal DNA methylation reveals diagnostic and prognostic markers for esophageal squamous-cell carcinoma显示文摘This study investigates aberrant DNA methylations as potential diagnosis and prognosis markers for esophageal squamous-cell carcinoma(ESCC),which if diagnosed at advanced stages has<30%five-year survival rate.Comparing genome-wide methylation sites of 91 ESCC and matched adjacent normal tissues,we identified 35,577 differentially methylated CpG sites(DMCs)and characterized their distribution patterns. | Yiyi Xi Yuan Lin Wenjia Guo Xinyu Wang Hengqiang Zhao Chuanwang Miao Weiling Liu Yachen Liu Tianyuan Liu Yingying Luo Wenyi Fan Ai Lin Yamei Chen Yanxia Sun Yulin Ma Xiangjie Niu Ce Zhong Wen Tan Meng Zhou Jianzhong Su Chen Wu Dongxin Lin | 2022 | Signal Transduction and Targeted Therapy2022，7，3： | 2 |
| 3 | Comparison of dimension reduction-based logistic regression models for case-control genome-wide association study:principal components analysis vs.partial least squares显示文摘With recent advances in biotechnology, genome-wide association study(GWAS) has been widely used to identify genetic variants that underlie human complex diseases and traits. In case-control GWAS, typical statistical strategy is traditional logistical regression(LR) based on single-locus analysis. However, such a single-locus analysis leads to the well-known multiplicity problem, with a risk of inflating type I error and reducing power. Dimension reduction-based techniques, such as principal component-based logistic regression(PC-LR), partial least squares-based logistic regression(PLS-LR), have recently gained much attention in the analysis of high dimensional genomic data. However, the perfor?mance of these methods is still not clear, especially in GWAS. We conducted simulations and real data application to compare the type I error and power of PC-LR, PLS-LR and LR applicable to GWAS within a defined single nucleotide polymorphism(SNP) set region. We found that PC-LR and PLS can reasonably control type I error under null hypothesis.On contrast, LR, which is corrected by Bonferroni method, was more conserved in all simulation settings. In particular, we found that PC-LR and PLS-LR had comparable power and they both outperformed LR, especially when the causal SNP was in high linkage disequilibrium with genotyped ones and with a small effective size in simulation. Based on SNP set analysis, we applied all three methods to analyze non-small cell lung cancer GWAS data. | Honggang Yi Hongmei Wo Yang Zhao Ruyang Zhang Junchen Dai Guangfu Jin Hongxia Ma Tangchun Wu Zhibin Hu Dongxin Lin Hongbing Shen Feng Chen | 2015 | The Journal of Biomedical Research2015，29，4： | 2 |
| 4 | Identification of Functional Genetic Variants in Cyclooxygenase-2 and Their Association With Risk of Esophageal Cancer显示文摘 | Xuemei Zhang Xiaoping Miao Wen Tan Baitang Ning Zhihua Liu Yuan Hong Wenguang Song Yongli Guo Xinyu Zhang Yan Shen Boqin Qiang Fred F. Kadlubar Dongxin Lin | 2005 | Gastroenterology2005，，2： | 1 |
| 5 | Inactivation of DNA repair gene O6-methylguanine-DNA methyltransferase by promoter hypermethylation and its relation to p53 mutations in esophageal squamous cell carcinoma显示文摘 | Lei Zhang Wenfu Lu Xiaoping Miao Deyin Xing Wen Tan Dongxin Lin | 2006 | 中国生物学文摘2006，20，4： | 1 |
| 6 | Identification of Functional Genetic Variants in Cyclooxygenase-2 and Their Association With Risk of Esophageal Cancer显示文摘 | Xuemei Zhang Xiaoping Miao Wen Tan Baitang Ning Zhihua Liu Yuan Hong Wenguang Song Yongli Guo Xinyu Zhang Yan Shen Boqin Qiang Fred F. Kadlubar Dongxin Lin | 2005 | Gastroenterology2005，，2： | 1 |
| 7 | Identification of Functional Genetic Variants in Cyclooxygenase-2 and Their Association With Risk of Esophageal Cancer显示文摘 | Xuemei Zhang Xiaoping Miao Wen Tan Baitang Ning Zhihua Liu Yuan Hong Wenguang Song Yongli Guo Xinyu Zhang Yan Shen Boqin Qiang Fred F. Kadlubar Dongxin Lin | 2005 | Gastroenterology2005，，2： | 1 |
| 8 | Risk prediction of esophageal squamous-cell carcinoma with common genetic variants and lifestyle factors in Chinese population显示文摘 | Jiang Chang Ying Huang Lixuan Wei Baoshan Ma Xiaoping Miao Yun Li Zhibin Hu Dianke Yu Weihua Jia Yu Liu Wen Tan Zhonghu He Yang Ke Tangchun Wu Hongbing Shen Yixin Zeng Chen Wu Dongxin Lin | 2013 | Carcinogenesis2013，，8： | 1 |
| 9 | 本校近期发表IF≥4.0的SCI论文摘要(英文)——Genetic Variants on Chromosome 15q25 Associated with Lung Cancer Risk in Chinese Populations显示文摘 | Hu Zhibin Jin Guangfu Liang Jie Zhang Mingfeng Shen Hongbing Wu Chen Yu Dianke Huang Liming Tan Wen Lin Dongxin Guo Huan Wu Tangchun Qian Ji Lu Daru | 2009 | 南京医科大学学报(自然科学版)2009，29，9： | 1 |
| 10 | Susceptibility to gastric cardia adenocarcinoma and genetic polymorphisms in methylenetetrahydrofolate reductase in an atrisk Chinese population 显示文摘 | Miao Xiaoping Xing Deyin Lin Dongxin | 2002 | Cancer Epidemiol Biomarkers Prey2002，11，： | 1 |
| 11 | XRCC1 polymorphisms and severe toxicity in lung cancer patients treated with cisplatin-based chemotherapy in Chinese population显示文摘 | Zhonghua Wang Binghe Xu Dongxin Lin | 2008 | Lung Cancer2008，62，： | 1 |
| 12 | VAV2 is required for DNA repair and implicated in cancer radiotherapy resistance显示文摘Radiotherapy remains the mainstay for treatment of various types of human cancer;however,the clinical efficacy is often limited by radioresistance,in which the underlying mechanism is largely unknown.Here,using esophageal squamous cell carcinoma(ESCC)as a model,we demonstrate that guanine nucleotide exchange factor 2(VAV2),which is overexpressed in most human cancers,plays an important role in primary and secondary radioresistance.We have discovered for the first time that VAV2 is required for the Ku70/Ku80 complex formation and participates in non-homologous end joining repair of DNA damages caused by ionizing radiation. | Weiling Liu Chuanwang Miao Shaosen Zhang Yachen Liu Xiangjie Niu Yiyi Xi Wenjia Guo Jiahui Chu Ai Lin Hongjin Liu Xinyu Yang Xinjie Chen Ce Zhong Yuling Ma Yuqian Wang Shihao Zhu Shuning Liu Wen Tan Dongxin Lin Chen Wu | 2021 | Signal Transduction and Targeted Therapy2021，6，9： | 1 |
| 13 | Genetic Variants in Cyclooxygenase-2 : Expression and Risk of Gastric Cancer and Its Precursors in a Chinese Population显示文摘 | Fen Liu Kaifeng Pan Xuemei Zhang Yang Zhang Lian Zhang Junling Ma Caixuan Dong Lin Shen Jiyou Li Dajun Deng Dongxin Lin Weicheng You | 2006 | Gastroenterology2006，，7： | 1 |
| 14 | Genetic Polymorphisms in Methylenetetrahydrofolate Reductase and Thymidylate Synthase and Risk of Pancreatic Cancer显示文摘 | Li Wang Xiaoping Miao Wen Tan Xinghua Lu Ping Zhao Xiaohang Zhao Yi Shan Hui Li Dongxin Lin | 2005 | Clinical Gastroenterology and Hepatology2005，，8： | 1 |
| 15 | Genetic variants at 5p15 are associated with risk and early onset of gastric cancer in Chinese populations显示文摘 | Jiangbo Du Yaochu Xu Juncheng Dai Chuanli Ren Chen Zhu Ningbin Dai Hongxia Ma Yongyong Shi Zhibin Hu Dongxin Lin Hongbing Shen Guangfu Jin | 2013 | Carcinogenesis2013，，11： | 1 |
| 16 | A functional BRCA1 coding sequence genetic variant contributes to risk of esophageal squamous cell carcinoma显示文摘 | Xiaojiao Zhang Jinyu Wei Liqing Zhou Changchun Zhou Juan Shi Qipeng Yuan Ming Yang Dongxin Lin | 2013 | Carcinogenesis2013，，10： | 1 |
| 17 | Genetic polymorphisms and susceptibility to esophageal cancer amongChinese population (Review)显示文摘 | Deyin Xing Wen Tan Dongxin Lin | 2003 | Oncology Reports2003，，5： | 1 |
| 18 | CCGD-ESCC: A Comprehensive Database for Genetic Variants Associated with Esophageal Squamous Cell Carcinoma in Chinese Population显示文摘Esophageal squamous-cell carcinoma(ESCC) is one of the most lethal malignancies in the world and occurs at particularly higher frequency in China. While several genome-wide association studies(GWAS) of germline variants and whole-genome or whole-exome sequencing studies of somatic mutations in ESCC have been published, there is no comprehensive database publically available for this cancer. Here, we developed the Chinese Cancer Genomic Database-Esophageal Squamous Cell Carcinoma(CCGD-ESCC) database, which contains the associations of 69,593 single nucleotide polymorphisms(SNPs) with ESCC risk in 2022 cases and 2039 controls, survival time of 1006 ESCC patients(survival GWAS) and gene expression(expression quantitative trait loci,eQTL) in 94 ESCC patients. Moreover, this database also provides the associations between8833 somatic mutations and survival time in 675 ESCC patients. Our user-friendly database is a resource useful for biologists and oncologists not only in identifying the associations of genetic variants or somatic mutations with the development and progression of ESCC but also in studying the underlying mechanisms for tumorigenesis of the cancer. CCGD-ESCC is freely accessible at http://gffzzdf7d528e3a264cb9h9vwqfofvn9qn6c60.ffgz.tsg.suse.edu.cn/ccgd/ESCCdb. | Linna Peng Sijin Cheng Yuan Lin Qionghua Cui Yingying Luo Jiahui Chu Mingming Shao Wenyi Fan Yamei Chen Ai Lin Yiyi Xi Yanxia Sun Lei Zhang Chao Zhang Wen Tan Ge Gao Chen Wu Dongxin Lin | 2018 | Genomics, Proteomics & Bioinformatics2018，16，4： | 1 |
| 19 | Improving Ultrasonic Testing by Using Machine Learning Framework Based on Model Interpretation Strategy显示文摘Ultrasonic testing(UT)is increasingly combined with machine learning(ML)techniques for intelligently identifying damage.Extracting signifcant features from UT data is essential for efcient defect characterization.Moreover,the hidden physics behind ML is unexplained,reducing the generalization capability and versatility of ML methods in UT.In this paper,a generally applicable ML framework based on the model interpretation strategy is proposed to improve the detection accuracy and computational efciency of UT.Firstly,multi-domain features are extracted from the UT signals with signal processing techniques to construct an initial feature space.Subsequently,a feature selection method based on model interpretable strategy(FS-MIS)is innovatively developed by integrating Shapley additive explanation(SHAP),flter method,embedded method and wrapper method.The most efective ML model and the optimal feature subset with better correlation to the target defects are determined self-adaptively.The proposed framework is validated by identifying and locating side-drilled holes(SDHs)with 0.5λcentral distance and different depths.An ultrasonic array probe is adopted to acquire FMC datasets from several aluminum alloy specimens containing two SDHs by experiments.The optimal feature subset selected by FS-MIS is set as the input of the chosen ML model to train and predict the times of arrival(ToAs)of the scattered waves emitted by adjacent SDHs.The experimental results demonstrate that the relative errors of the predicted ToAs are all below 3.67%with an average error of 0.25%,signifcantly improving the time resolution of UT signals.On this basis,the predicted ToAs are assigned to the corresponding original signals for decoupling overlapped pulse-echoes and reconstructing high-resolution FMC datasets.The imaging resolution is enhanced to 0.5λby implementing the total focusing method(TFM).The relative errors of hole depths and central distance are no more than 0.51%and 3.57%,respectively.Finally,the superior performance of the proposed FS-MIS is validated by comparing it with initial feature space and conventional dimensionality reduction techniques. | Siqi Shi Shijie Jin Donghui Zhang Jingyu Liao Dongxin Fu Li Lin | 2023 | Chinese Journal of Mechanical Engineering2023，36，5： | 0 |
| 20 | Detection of piRNA-54265 in human serum:evidence and significance显示文摘Dear Editor,An increasing number of studies have shown that PIWIinteracting RNAs(piRNAs)are aberrantly expressed in many types of human cancer and involved in regulating the malignant progression,piRNAs would be expected to serve as molecular biomarkers for cancer screening and early diagnosis.In a previous study,we have identified the presence of piRNA-54265 in human serum[1].Further research has demonstrated that it is a promising and specific blood molecularmarker for colorectal cancer(CRC)[2].In these studies,we have developed a stem-loop primer reverse transcription-quantitative PCR(RT-qPCR)approach to determine the piRNA-54265 levels,which included the reverse transcription of piRNA-54265 to cDNA using a stem-loop primer and the quantitative detection of cDNA by PCR with the primers and probe specific for piR-54265[2]. | Dongmei Mai Ying Ye Lisha Zhuang Jian Zheng Dongxin Lin | 2023 | Cancer Communications2023，43，2： | 0 |
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