keyword
MENU ▼
Read by QxMD icon Read
search

gene expression meta-analysis

keyword
https://www.readbyqxmd.com/read/28431407/prognositic-value-of-cd73-adenosinergic-pathway-in-solid-tumor-a-meta-analysis-and-systematic-review
#1
Rong Wang, Yingying Zhang, Xia Lin, Yalin Gao, Ying Zhu
CD73 is a glycosylphosphatidylinositol (GPI) anchored cell surface protein that is encoded by NT5E gene, plays multiple roles in tumor processes. Previous studies have presented a potential value of CD73 served as a detectable biomarker for prognosis of several solid tumors, but the results were more controversially. A comprehensive meta-analysis was conducted to precisely evaluate the prognostic role of CD73 in solid tumors. The included studies were searched in PubMed, Web of Science and EBSCO from Jan 1990 to Jan 2016...
April 6, 2017: Oncotarget
https://www.readbyqxmd.com/read/28421096/regulation-of-banana-phytoene-synthase-mapsy-expression-characterization-and-their-modulation-under-various-abiotic-stress-conditions
#2
Navneet Kaur, Ashutosh Pandey, Shivani, Prateek Kumar, Pankaj Pandey, Atul K Kesarwani, Shrikant S Mantri, Praveen Awasthi, Siddharth Tiwari
Phytoene synthase (PSY) is a key regulatory enzyme of carotenoid biosynthesis pathway in plants. The present study examines the role of PSY in carotenogenesis and stress management in banana. Germplasm screening of 10 Indian cultivars showed that Nendran (3011.94 μg/100 g dry weight) and Rasthali (105.35 μg/100 g dry weight) contained the highest and lowest amounts of β-carotene, respectively in ripe fruit-pulp. Nendran ripe pulp also showed significantly higher antioxidant activity as compared to Rasthali...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28418402/transcriptome-sequencing-study-implicates-immune-related-genes-differentially-expressed-in-schizophrenia-new-data-and-a-meta-analysis
#3
A R Sanders, E I Drigalenko, J Duan, W Moy, J Freda, H H H Göring, P V Gejman
We undertook an RNA sequencing (RNAseq)-based transcriptomic profiling study on lymphoblastoid cell lines of a European ancestry sample of 529 schizophrenia cases and 660 controls, and found 1058 genes to be differentially expressed by affection status. These differentially expressed genes were enriched for involvement in immunity, especially the 697 genes with higher expression in cases. Comparing the current RNAseq transcriptomic profiling to our previous findings in an array-based study of 268 schizophrenia cases and 446 controls showed a highly significant positive correlation over all genes...
April 18, 2017: Translational Psychiatry
https://www.readbyqxmd.com/read/28412611/hypermethylation-of-death-associated-protein-kinase-dapk1-and-its-association-with-oral-carcinogenesis-an-experimental-and-meta-analysis-study
#4
Chinchu Jayaprakash, Vinay Koshy Varghese, Ravishankara Bellampalli, Raghu Radhakrishnan, Satadru Ray, Shama Prasada Kabekkodu, Kapaettu Satyamoorthy
OBJECTIVES: The value of abnormal DNA methylation of DAPK1 promoter and its association with various cancers have been suggested in the literature. To establish the significance of DNA methylation of DAPK1 promoter in oral squamous cell carcinoma (OSCC), we a) performed a case-control study, b) evaluated published data for its utility in the diagnosis and prognosis of OSCC and c) identified the association of DAPK1 gene expression with promoter DNA methylation status. DESIGN: Bisulfite gene sequencing of DAPK1 promoter region was performed on non-malignant and malignant oral samples...
March 31, 2017: Archives of Oral Biology
https://www.readbyqxmd.com/read/28408660/a-global-co-expression-network-approach-for-connecting-genes-to-specialized-metabolic-pathways-in-plants
#5
Jennifer H Wisecaver, Alexander T Borowsky, Vered Tzin, Georg Jander, Daniel J Kliebenstein, Antonis Rokas
Plants produce diverse specialized metabolites (SMs), but the genes responsible for their production and regulation remain largely unknown, hindering efforts to tap plant pharmacopeia. Given that genes comprising SM pathways exhibit environmentally dependent co-regulation, we hypothesized that genes within a SM pathway would form tight associations (modules) with each other in co-expression networks, facilitating their identification. To evaluate this hypothesis, we used 10 global co-expression datasets, each a meta-analysis of hundreds to thousands of experiments, across eight plant species to identify hundreds of co-expressed gene modules per dataset...
April 13, 2017: Plant Cell
https://www.readbyqxmd.com/read/28404887/the-mutation-of-trp64arg-in-%C3%AE-3-adrenoreceptor-encoding-gene-is-significantly-associated-with-increased-hypertension-risk-and-elevated-blood-pressure-a-meta-analysis
#6
Hualing Yang, Dongmiao Cai, Qingping Zhu, Dongjin Wu, Qingxiang Wang, Zhanxiang Wang
This meta-analysis was implemented to test the association of a missense mutation, Trp64Arg, in β3-adrenoreceptor-encoding gene (ADRB3) with both hypertension risk and blood pressure (BP) changes. A systematic search of three publicly-available databases was launched to look for articles published as of December 2016. Qualification appraisal and data extraction were independently done by two researchers. Pooled estimates were expressed as odds ratio (OR) or weighted mean difference (WMD), and their 95% confidence intervals (95% CIs)...
March 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28402941/mirna-dysregulation-and-the-risk-of-metastasis-and-invasion-in-papillary-thyroid-cancer-a-systematic-review-and-meta-analysis
#7
REVIEW
Tiantian Wang, Hao Xu, Ming Qi, Sheng Yan, Xingsong Tian
Thyroid cancer (TC) is the most common endocrine malignancy, with an incidence continuing to grow every year. Although thyroid cancer as a whole is generally indolent and relatively easy to treat, some subtypes carry a higher rate of metastasis and cancer-related mortality. A growing number of studies have focused on the dysregulation of miRNAs in TC. However, differences in methods make comparison of gene profiling data difficult. A meta-analysis of published studies comparing miRNA expression data of invasive thyroid carcinoma with paired non-invasive tumors or normal tissues was performed by searching the literature for "invasion", "thyroid cancer", and "miRNA"...
March 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28401644/comprehensive-dissection-of-transcriptome-data-and-regulatory-factors-in-pancreatic-cancer-cells
#8
Bijan Akbari, Abdulshakour Mohammadnia, Moein Yaqubi, Ping Wee, Hamid Mahdiuni
Features of pancreatic cancers include high mortality rates caused by rapid tumor progression and a lack of effective therapy. Underpinning the molecular mechanisms involved in the alteration of the gene expression program in the pancreatic cancer remains to be understood. In the current study we performed a comprehensive analysis using 282 pancreatic tumor and normal samples from seven independent expression data sets to provide a better view on the interactions between different transcription factors (TFs) and the most affected biological pathways in pancreatic cancer...
April 12, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28401451/col1a2-is-a-novel-biomarker-to-improve-clinical-prediction-in-human-gastric-cancer-integrating-bioinformatics-and-meta-analysis
#9
Li Rong, Wei Huang, Shangkun Tian, Xiangbo Chi, Pan Zhao, Fengfeng Liu
Gastric cancer is the third most common cause of cancer-related death in worldwide. It is crucial to target the key genes controlling pathogenesis in the early stage of gastric cancer. This study describes an integrated bioinformatics to identify molecular biomarkers for gastric cancer in patients' cancer tissues. We reports differently expression genes in large gastric cancer cohorts from Gene Expression Ominus (GEO). Our findings revealed that 433 genes were significantly different expressed in human gastric cancer...
April 11, 2017: Pathology Oncology Research: POR
https://www.readbyqxmd.com/read/28399794/meta-analysis-approach-as-a-gene-selection-method-in-class-prediction-does-it-improve-model-performance-a-case-study-in-acute-myeloid-leukemia
#10
Putri W Novianti, Victor L Jong, Kit C B Roes, Marinus J C Eijkemans
BACKGROUND: Aggregating gene expression data across experiments via meta-analysis is expected to increase the precision of the effect estimates and to increase the statistical power to detect a certain fold change. This study evaluates the potential benefit of using a meta-analysis approach as a gene selection method prior to predictive modeling in gene expression data. RESULTS: Six raw datasets from different gene expression experiments in acute myeloid leukemia (AML) and 11 different classification methods were used to build classification models to classify samples as either AML or healthy control...
April 11, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28396836/down-regulation-of-mir-146a-5p-and-its-potential-targets-in-hepatocellular-carcinoma-validated-by-a-tcga-and-geo-based-study
#11
Xin Zhang, Zhi-Hua Ye, Hai-Wei Liang, Fang-Hui Ren, Ping Li, Yi-Wu Dang, Gang Chen
Our previous research has demonstrated that miR-146a-5p is down-regulated in hepatocellular carcinoma (HCC) and might play a tumor-suppressive role. In this study, we sought to validate the decreased expression with a larger cohort and to explore potential molecular mechanisms. GEO and TCGA databases were used to gather miR-146a-5p expression data in HCC, which included 762 HCC and 454 noncancerous liver tissues. A meta-analysis of the GEO-based microarrays, TCGA-based RNA-seq data, and additional qRT-PCR data validated the down-regulation of miR-146a-5p in HCC and no publication bias was observed...
April 2017: FEBS Open Bio
https://www.readbyqxmd.com/read/28394258/large-scale-genome-wide-analysis-identifies-genetic-variants-associated-with-cardiac-structure-and-function
#12
Philipp S Wild, Janine F Felix, Arne Schillert, Alexander Teumer, Ming-Huei Chen, Maarten J G Leening, Uwe Völker, Vera Großmann, Jennifer A Brody, Marguerite R Irvin, Sanjiv J Shah, Setia Pramana, Wolfgang Lieb, Reinhold Schmidt, Alice V Stanton, Dörthe Malzahn, Albert Vernon Smith, Johan Sundström, Cosetta Minelli, Daniela Ruggiero, Leo-Pekka Lyytikäinen, Daniel Tiller, J Gustav Smith, Claire Monnereau, Marco R Di Tullio, Solomon K Musani, Alanna C Morrison, Tune H Pers, Michael Morley, Marcus E Kleber, Jayashri Aragam, Emelia J Benjamin, Joshua C Bis, Egbert Bisping, Ulrich Broeckel, Susan Cheng, Jaap W Deckers, Fabiola Del Greco M, Frank Edelmann, Myriam Fornage, Lude Franke, Nele Friedrich, Tamara B Harris, Edith Hofer, Albert Hofman, Jie Huang, Alun D Hughes, Mika Kähönen, Knhi Investigators, Jochen Kruppa, Karl J Lackner, Lars Lannfelt, Rafael Laskowski, Lenore J Launer, Margrét Leosdottir, Honghuang Lin, Cecilia M Lindgren, Christina Loley, Calum A MacRae, Deborah Mascalzoni, Jamil Mayet, Daniel Medenwald, Andrew P Morris, Christian Müller, Martina Müller-Nurasyid, Stefania Nappo, Peter M Nilsson, Sebastian Nuding, Teresa Nutile, Annette Peters, Arne Pfeufer, Diana Pietzner, Peter P Pramstaller, Olli T Raitakari, Kenneth M Rice, Fernando Rivadeneira, Jerome I Rotter, Saku T Ruohonen, Ralph L Sacco, Tandaw E Samdarshi, Helena Schmidt, Andrew S P Sharp, Denis C Shields, Rossella Sorice, Nona Sotoodehnia, Bruno H Stricker, Praveen Surendran, Simon Thom, Anna M Töglhofer, André G Uitterlinden, Rolf Wachter, Henry Völzke, Andreas Ziegler, Thomas Münzel, Winfried März, Thomas P Cappola, Joel N Hirschhorn, Gary F Mitchell, Nicholas L Smith, Ervin R Fox, Nicole D Dueker, Vincent W V Jaddoe, Olle Melander, Martin Russ, Terho Lehtimäki, Marina Ciullo, Andrew A Hicks, Lars Lind, Vilmundur Gudnason, Burkert Pieske, Anthony J Barron, Robert Zweiker, Heribert Schunkert, Erik Ingelsson, Kiang Liu, Donna K Arnett, Bruce M Psaty, Stefan Blankenberg, Martin G Larson, Stephan B Felix, Oscar H Franco, Tanja Zeller, Ramachandran S Vasan, Marcus Dörr
BACKGROUND: Understanding the genetic architecture of cardiac structure and function may help to prevent and treat heart disease. This investigation sought to identify common genetic variations associated with inter-individual variability in cardiac structure and function. METHODS: A GWAS meta-analysis of echocardiographic traits was performed, including 46,533 individuals from 30 studies (EchoGen consortium). The analysis included 16 traits of left ventricular (LV) structure, and systolic and diastolic function...
April 10, 2017: Journal of Clinical Investigation
https://www.readbyqxmd.com/read/28390038/integrative-transcriptome-analysis-of-liver-cancer-profiles-identifies-upstream-regulators-and-clinical-significance-of-acsm3-gene-expression
#13
Ramani Gopal, Karthikeyan Selvarasu, Ponmathi Panneer Pandian, Kumaresan Ganesan
PURPOSE: Hepatocellular carcinoma (HCC) is one of the most common human malignancies. It has frequently been associated with metabolic perturbations and liver damages. Various members of the family of acyl-CoA synthetases are known to be involved in the production of bioactive fatty acids, and altered expression of its encoding genes has been found to be involved in metabolic perturbations. For the development of novel diagnostic and therapeutic HCC options, a fundamental understanding of the mechanisms associated with the deregulation of candidate genes involved in metabolic perturbation is required...
April 7, 2017: Cellular Oncology (Dordrecht)
https://www.readbyqxmd.com/read/28386169/establishment-of-apoptotic-regulatory-network-for-genetic-markers-of-colorectal-cancer
#14
Yibin Hao, Guoyong Shan, Kejun Nan
Our purpose is to screen out genetic markers applicable to early diagnosis for colorectal cancer and to establish apoptotic regulatory network model for colorectal cancer, thereby providing theoretical evidence and targeted therapy for early diagnosis of colorectal cancer. Taking databases including CNKI, VIP, Wanfang data, Pub Med, and MEDLINE as main sources of literature retrieval, literatures associated with genetic markers applied to early diagnosis of colorectal cancer were searched to perform comprehensive and quantitative analysis by Meta analysis, hence screening genetic markers used in early diagnosis of colorectal cancer...
March 2017: Saudi Journal of Biological Sciences
https://www.readbyqxmd.com/read/28385711/microbiota-regulate-intestinal-epithelial-gene-expression-by-suppressing-the-transcription-factor-hepatocyte-nuclear-factor-4-alpha
#15
James M Davison, Colin R Lickwar, Lingyun Song, Ghislain Breton, Gregory E Crawford, John F Rawls
Microbiota influence diverse aspects of intestinal physiology and disease in part by controlling tissue-specific transcription of host genes. However, host genomic mechanisms mediating microbial control of intestinal gene expression are poorly understood. Hepatocyte nuclear factor 4 (HNF4) is the most ancient family of nuclear receptor transcription factors with important roles in human metabolic and inflammatory bowel diseases, but a role in host response to microbes is unknown. Using an unbiased screening strategy, we found that zebrafish Hnf4a specifically binds and activates a microbiota-suppressed intestinal epithelial transcriptional enhancer...
April 6, 2017: Genome Research
https://www.readbyqxmd.com/read/28375188/role-of-myc-in-b-cell-lymphomagenesis
#16
REVIEW
Petra Korać, Snježana Dotlić, Maja Matulić, Matea Zajc Petranović, Mara Dominis
B cell lymphomas mainly arise from different developmental stages of B cells in germinal centers of secondary lymphoid tissue. There are a number of signaling pathways that affect the initiation and development of B cell lymphomagenesis. The functions of several key proteins that represent branching points of signaling networks are changed because of their aberrant expression, degradation, and/or accumulation, and those events determine the fate of the affected B cells. One of the most influential transcription factors, commonly associated with unfavorable prognosis for patients with B cell lymphoma, is nuclear phosphoprotein MYC...
April 4, 2017: Genes
https://www.readbyqxmd.com/read/28363426/molecular-pathology-of-skeletal-growth-anomalies-in-the-brain-coral-platygyra-carnosa-a-meta-transcriptomic-analysis
#17
Yu Zhang, Jin Sun, Huawei Mu, Janice C Y Lun, Jian-Wen Qiu
Coral skeletal growth anomaly (GA) is a common coral disease. Although extensive ecological characterizations of coral GA have been performed, the molecular pathology of this disease remains largely unknown. We compared the meta-transcriptome of normal and GA-affected polyps of Platygyra carnosa using RNA-Seq. Approximately 50 million sequences were generated from four pairs of normal and GA-affected tissue samples. There were 109 differentially expressed genes (DEGs) in P. carnosa and 31 DEGs in the coral symbiont Symbiodinium sp...
March 28, 2017: Marine Pollution Bulletin
https://www.readbyqxmd.com/read/28362817/cis-eqtl-based-trans-ethnic-meta-analysis-reveals-novel-genes-associated-with-breast-cancer-risk
#18
Joshua D Hoffman, Rebecca E Graff, Nima C Emami, Caroline G Tai, Michael N Passarelli, Donglei Hu, Scott Huntsman, Dexter Hadley, Lancelote Leong, Arunabha Majumdar, Noah Zaitlen, Elad Ziv, John S Witte
Breast cancer is the most common solid organ malignancy and the most frequent cause of cancer death among women worldwide. Previous research has yielded insights into its genetic etiology, but there remains a gap in the understanding of genetic factors that contribute to risk, and particularly in the biological mechanisms by which genetic variation modulates risk. The National Cancer Institute's "Up for a Challenge" (U4C) competition provided an opportunity to further elucidate the genetic basis of the disease...
March 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28351094/overexpression-of-lncrna-hotair-is-associated-with-poor-prognosis-in-thyroid-carcinoma-a-study-based-on-tcga-and-geo-data
#19
Hong-Mei Li, Hong Yang, Dong-Yue Wen, Yi-Huan Luo, Chun-Yan Liang, Deng-Hua Pan, Wei Ma, Gang Chen, Yun He, Jun-Qiang Chen
The role of long non-coding RNA (lncRNA) HOX transcript antisense RNA (HOTAIR) in thyroid carcinoma (TC) remains unclear. The current study was aimed to assess the clinical value of HOTAIR expression levels in TC based on publically available data and to evaluate its potential signaling pathways. The expression data of HOTAIR and clinical information concerning TC were downloaded from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO), respectively. Furthermore, 3 online biological databases, Starbase, Cbioportal, and Multi Experiment Matrix, were used to identify HOTAIR-related genes in TC...
March 28, 2017: Hormone and Metabolic Research, Hormon- und Stoffwechselforschung, Hormones et Métabolisme
https://www.readbyqxmd.com/read/28350400/immune-involvement-in-the-pathogenesis-of-schizophrenia-a-meta-analysis-on-postmortem-brain-studies
#20
C F M G van Kesteren, H Gremmels, L D de Witte, E M Hol, A R Van Gool, P G Falkai, R S Kahn, I E C Sommer
Although the precise pathogenesis of schizophrenia is unknown, genetic, biomarker and imaging studies suggest involvement of the immune system. In this study, we performed a systematic review and meta-analysis of studies investigating factors related to the immune system in postmortem brains of schizophrenia patients and healthy controls. Forty-one studies were included, reporting on 783 patients and 762 controls. We divided these studies into those investigating histological alterations of cellular composition and those assessing molecular parameters; meta-analyses were performed on both categories...
March 28, 2017: Translational Psychiatry
keyword
keyword
101618
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"