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Human gene expression sensitivity according to large scale meta-analysis

Pei Hao, Siyuan Zheng, Jie Ping, Kang Tu, Christian Gieger, Rui Wang-Sattler, Yang Zhong, Yixue Li
2009 BMC Bioinformatics  
of combining the gene expression sensitivity in the microarray analysis.  ...  Genes show different sensitivities in expression corresponding to various biological conditions.  ...  Acknowledgements We would like to thank Xiaojing Wang, Yao Yu and Yun Li for helpful dis-  ... 
doi:10.1186/1471-2105-10-s1-s56 pmid:19208159 pmcid:PMC2648786 fatcat:3bbxzamrvjdfbj3ccjs6ilzzla

CDH1 rs9929218 variant at 16q22.1 contributes to colorectal cancer susceptibility

Peng Han, Guiyou Liu, Xin Lu, Minmin Cao, Youling Yan, Jing Zou, Xiaobo Li, Guangyu Wang
2016 OncoTarget  
In order to validate the effect of rs9929218 variant on CDH1 expression, we further performed a functional analysis using two large-scale expression datasets.  ...  Evidence shows that rs9929218 may regulate different gene expressions in different human tissues.  ...  eQTL analysis in human peripheral blood To validate the effect of rs9929218 variant on CDH1 mRNA expression level, we performed an expression quantitative trait loci (eQTL) analysis using a large-scale  ... 
doi:10.18632/oncotarget.9758 pmid:27259261 pmcid:PMC5216941 fatcat:3vrqxfxy55ftpnsgbpuxzr27mu

Identification of core genes in ovarian cancer by an integrative meta-analysis

Wenyu Li, Zheran Liu, Bowen Liang, Siyang Chen, Xinping Zhang, Xiaoqin Tong, Weiming Lou, Lulu Le, Xiaoli Tang, Fen Fu
2018 Journal of Ovarian Research  
The present study systematically validates the results of previous studies and fills the gap regarding a large-scale meta-analysis in the field of epithelial ovarian cancer.  ...  significant differentially expressed genes (DEGs).  ...  Conclusion Until now, a large-scale meta-analysis identifying DEGs was absent from the ovarian cancer literature.  ... 
doi:10.1186/s13048-018-0467-z pmid:30453999 pmcid:PMC6240943 fatcat:zwn44cowr5cotakfvefyswdrvq

Eigengene networks for studying the relationships between co-expression modules

Peter Langfelder, Steve Horvath
2007 BMC Systems Biology  
Gene co-expression networks have been used to describe the relationships between gene transcripts.  ...  There is evidence that genes and their protein products are organized into functional modules according to cellular processes and pathways.  ...  Acknowledgements We would like to thank Mike Oldham, Dan Geschwind and Winden Kellen for discussions about the human-chimp data; Jake Lusis, Tom Drake, Atila Van Nas for discussion about the mouse data  ... 
doi:10.1186/1752-0509-1-54 pmid:18031580 pmcid:PMC2267703 fatcat:jix7jkmvy5e4vciggffhwtnpwu

Prognostic Value of MicroRNA-15a in Human Cancers: A Meta-Analysis and Bioinformatics

Fei-ran Yang, Hui-jie Li, Ting-ting Li, Yu-feng Zhao, Zong-kai Liu, Xiu-rong Li
2019 BioMed Research International  
Thus, a meta-analysis was conducted to clarify the prognostic value of miRNA-15a expression level in human cancers. Methods.  ...  Besides, subgroup analysis, sensitivity analysis, and publication bias were also revealed in this study. We also further validated this meta-analysis using the Kaplan-Meier plotter database.  ...  The meta-analysis according to the guidelines of the Preferred Reporting Items for Systematic Reviews and Meta-Analysis (PRISMA) statement and methods. [24] We retrieved some online databases consisting  ... 
doi:10.1155/2019/2063823 pmid:31061821 pmcid:PMC6466945 fatcat:glwhz7xiabbo7jwbz5lsrpxcqi

Long noncoding RNA MEG3, a potential novel biomarker to predict the clinical outcome of cancer patients: a meta-analysis

Xiangrong Cui, Xuan Jing, Chunlan Long, Jie Tian, Jing Zhu
2017 OncoTarget  
In conclusion, this meta-analysis indicated that MEG3 might serve as a potential novel biomarker for indicating the clinical outcomes in human cancers.  ...  Numerous studies have demonstrated that the expression level of maternally expressed gene 3 (MEG3) was lost in various cancers.  ...  ACKNOWLEDGMENTS AND FUNDING We are indebted to the donors whose names were not included in the author list, but who participated in this program.  ... 
doi:10.18632/oncotarget.14987 pmid:28157702 pmcid:PMC5386668 fatcat:zutzvwbjlrfnvik2t7h3qewo6e

MicroRNA biomarkers of type 2 diabetes: A protocol for corroborating evidence by computational genomics and meta-analyses

Hongmei Zhu, Siu-wai Leung, Rajvir Dahiya
2021 PLoS ONE  
Meta-analysis of AUC of potential biomarkers will also be conducted.  ...  Methods and analyses Controlled microRNA expression profiling studies on human with T2D will be retrieved from PubMed, ScienceDirect, and Embase for selecting the statistically significant microRNAs according  ...  Sensitivity analysis Sensitivity analysis will performed on the sample size to test the robustness of findings.  ... 
doi:10.1371/journal.pone.0247556 pmid:33822793 fatcat:6qymlh346rfe5it45rb3kix2sm

Weighted Meta-Analysis for Small Sample Microarray Studies

Dallas Joder, Nusrat Jahan
2017 Journal of Advanced Statistics  
In this work we discussed several meta-analysis methods for small sample gene expression studies.  ...  Meta-analysis could improve this situation by combining evidence from related studies to increase statistical power.  ...  This allowed us to run meta-analyses on simulated small sample data to compare the sensitivity, specificity, and false discovery rate of our five meta-analysis methods.  ... 
doi:10.22606/jas.2017.22003 fatcat:pbcmeuf4ffbkbi6shrttuich4u

Correlations of Pituitary Tumor Transforming Gene Expression with Human Pituitary Adenomas: A Meta-Analysis

Jian-Qi Xiao, Xiao-Hai Liu, Bo Hou, Yong Yao, Kan Deng, Min Feng, Bin Xing, Wei Lian, Ren-Zhi Wang, Feng Feng, Yunli Zhou
2014 PLoS ONE  
This meta-analysis aimed to derive a more precise estimation of the correlations of PTTG expression with human pituitary adenomas.  ...  No publication bias was detected in this meta-analysis (all P.0.05).  ...  Acknowledgments We would like to acknowledge the reviewers for their helpful comments on this paper.  ... 
doi:10.1371/journal.pone.0090396 pmid:24594688 pmcid:PMC3942425 fatcat:74wnjnlacrbzbb524axtyy32ly

Integrated Analysis of Multiscale Large-Scale Biological Data for Investigating Human Disease

Tao Huang, Lei Chen, Mingyue Zheng, Jiangning Song
2015 BioMed Research International  
Shin proposed a meta-analysis strategy for gene prioritization that integratively employs three different genetic resources: gene expression data, single nucleotide polymorphism (SNP) genotype data, and  ...  Guo et al. performed an integrated analysis of miRNA, lncRNA, and mRNA expression profiles in human HepG2 and L02 cells.  ... 
doi:10.1155/2015/760765 pmid:25973424 pmcid:PMC4417990 fatcat:6zxyj7yusve33gcdicrtllfrgu

Gene Expression Profiling in Leiomyosarcomas and Undifferentiated Pleomorphic Sarcomas: SRC as a New Diagnostic Marker

Rolando A. R. Villacis, Sara M. Silveira, Mateus C. Barros-Filho, Fabio A. Marchi, Maria A. C. Domingues, Cristovam Scapulatempo-Neto, Samuel Aguiar, Ademar Lopes, Isabela W. Cunha, Silvia R. Rogatto, Adriano Angelucci
2014 PLoS ONE  
To assess the relevance of the gene signature, a meta-analysis was performed using five published studies.  ...  Four genes (BAD, MYOCD, SRF and SRC) selected from the gene signature, meta-analysis and functional in silico analysis were further validated by quantitative PCR.  ...  Meta-analysis of microarray studies The meta-analysis was conducted according to the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) [24] .  ... 
doi:10.1371/journal.pone.0102281 pmid:25028927 pmcid:PMC4100821 fatcat:ogqpzd7mgbbs3fyugg3g2mhqje

The prognostic value of miR-126 expression in non-small-cell lung cancer: a meta-analysis

Wen Zheng, Ya Zhou, Jia Lu, Hualin Xu, Liangyu Lei, Chao Chen, Juanjuan Zhao, Lin Xu
2017 Cancer Cell International  
Here, we carried out a meta-analysis to assess the potential prognostic value of miR-126 for NSCLC.  ...  New castle-Ottawa scale was used to evaluate the quality of studies.  ...  Up to data, it was estimated that miRNAs may potentially regulate up to 30% of all human protein-coding genes [9] , Recently, a large body of evidence showed that miRNAs exerted pivotal effects in the  ... 
doi:10.1186/s12935-017-0440-8 pmid:28725162 pmcid:PMC5513344 fatcat:5ibeznryefchxgzj3uksrbbmv4

LncRNA DLX6-AS1 as a potential molecular biomarker in the clinicopathology and prognosis of various cancers: a meta-analysis

Shubo Tian, Jinglei Liu, Shuai Kong, Lipan Peng
2020 Bioscience Reports  
This meta-analysis revealed that high expression of DLX6-AS1 was related to the advanced clinicopathological characteristics of human digestive system cancers (gastric cancer, esophageal cancer, colon  ...  This meta-analysis is designed to investigate the effects of DLX6-AS1 expression on clinicopathological features and survival outcomes.  ...  Figure 3 . 3 Forest plots for the meta-analysis of OS Figure 4 .Figure 5 . 45 Funnel plot for the meta-analysis of OS Sensitivity analysis for the meta-analysis of OS Table 1 1 Basic information of  ... 
doi:10.1042/bsr20193532 pmid:32785606 pmcid:PMC7447853 fatcat:b2rctu5j6zhcjnjccroul5pbsa

Period Family of Clock Genes as Novel Predictors of Survival in Human Cancer: A Systematic Review and Meta-Analysis

Fan Deng, Kai Yang, Gang Zheng
2020 Disease Markers  
This study was the first to collect the relevant publications to systematically evaluate the value of the expression of the PER gene family in the prediction of survival and prognosis of human tumors.  ...  The sensitivity analysis revealed that the result was stable and reliable.  ...  The quality of included studies was independently evaluated according to the Newcastle-Ottawa scale (NOS) criteria [28] .  ... 
doi:10.1155/2020/6486238 pmid:32849922 pmcid:PMC7436287 fatcat:iopqc2b5brhw5i4bqmkhab4r4y

Association between ACE A240T polymorphism and cancer risk: a meta-analysis

Yingjun Xiao, Zheqing Dong, Ji Zhu, Jinbiao You, Jun Fan
2019 Journal of International Medical Research  
Nevertheless, large-scale studies should be performed to obtain convincing evidence on the roles of ACE A240T polymorphism on cancer risk.  ...  Conclusion: The A240T polymorphism in the ACE gene might be related to the risk of cancer.  ...  Second, data from only eight studies were included and analyzed, limiting the statistical power of the meta-analysis. Thus, large-scale studies are needed to obtain robust outcomes in the future.  ... 
doi:10.1177/0300060519882559 pmid:31694436 pmcid:PMC7045645 fatcat:6zlphzugnnevnplrvzg2hwmpyu
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