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https://www.readbyqxmd.com/read/27889881/identification-of-reference-genes-and-mirnas-for-qrt-pcr-in-human-esophageal-squamous-cell-carcinoma
#1
Li Chen, Yulin Jin, Lin Wang, Fenghao Sun, Xiaodong Yang, Mengkun Shi, Cheng Zhan, Yu Shi, Qun Wang
It is important to select an appropriate reference gene and miRNA when using quantitative real-time polymerase chain reaction (qRT-PCR) to analyze gene and miRNA expression. However, many commonly used reference genes and miRNAs are not stably expressed and therefore not suitable for normalization or quantification of qRT-PCR data. This study aims to identify appropriate reference genes and miRNAs for use in human esophageal squamous carcinoma qRT-PCR analysis. Using data provided by The Cancer Genome Atlas, we identified DDX5, LAPTM4A, P4HB, RHOA, miR-28-5p, miR-34a-5p, and miR-186-5p as candidate reference genes and miRNAs...
January 2017: Medical Oncology
https://www.readbyqxmd.com/read/27835695/reference-genes-for-addressing-gene-expression-of-bladder-cancer-cell-models-under-hypoxia-a-step-towards-transcriptomic-studies
#2
Luís Lima, Cristiana Gaiteiro, Andreia Peixoto, Janine Soares, Manuel Neves, Lúcio Lara Santos, José Alexandre Ferreira
Highly aggressive, rapidly growing tumors contain significant areas of hypoxia or anoxia as a consequence of inadequate and/or irregular blood supply. During oxygen deprivation, tumor cells withstand a panoply of adaptive responses, including a shift towards anaerobic metabolism and the reprogramming of the transcriptome. One of the major mediators of the transcriptional hypoxic response is the hypoxia-inducible factor 1 (HIF-1), whose stabilization under hypoxia acts as an oncogenic stimulus contributing to chemotherapy resistance, invasion and metastasis...
2016: PloS One
https://www.readbyqxmd.com/read/27824922/identification-of-reference-genes-for-quantitative-real-time-pcr-in-date-palm-phoenix-dactylifera-l-subjected-to-drought-and-salinity
#3
Himanshu V Patankar, Dekoum V M Assaha, Rashid Al-Yahyai, Ramanjulu Sunkar, Mahmoud W Yaish
Date palm is an important crop plant in the arid and semi-arid regions supporting human population in the Middle East and North Africa. These areas have been largely affected by drought and salinity due to insufficient rainfall and improper irrigation practices. Date palm is a relatively salt- and drought-tolerant plant and more recently efforts have been directed to identifying genes and pathways that confer stress tolerance in this species. Quantitative real-time PCR (qPCR) is a promising technique for the analysis of stress-induced differential gene expression, which involves the use of stable reference genes for normalizing gene expression...
2016: PloS One
https://www.readbyqxmd.com/read/27803707/selection-of-reliable-reference-genes-for-gene-expression-studies-on-rhododendron-molle-g-don
#4
Zheng Xiao, Xiaobo Sun, Xiaoqing Liu, Chang Li, Lisi He, Shangping Chen, Jiale Su
The quantitative real-time polymerase chain reaction (qRT-PCR) approach has become a widely used method to analyze expression patterns of target genes. The selection of an optimal reference gene is a prerequisite for the accurate normalization of gene expression in qRT-PCR. The present study constitutes the first systematic evaluation of potential reference genes in Rhododendron molle G. Don. Eleven candidate reference genes in different tissues and flowers at different developmental stages of R. molle were assessed using the following three software packages: GeNorm, NormFinder, and BestKeeper...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27761339/evaluation-of-reference-genes-for-gene-expression-in-red-tailed-phascogale-phascogale-calura-liver-lung-small-intestine-and-spleen
#5
Oselyne T W Ong, Lauren J Young, Julie M Old
BACKGROUND: Reference genes serve an important role as an endogenous control/standard for data normalisation in gene expression studies. Although reference genes have recently been suggested for marsupials, independent analysis of reference genes on different immune tissues is yet to be tested. Therefore, an assessment of reference genes is needed for the selection of stable, expressed genes across different marsupial tissues. METHODS: The study was conducted on red-tailed phascogales (Phascogale calura) using five juvenile and five adult males...
2016: PeerJ
https://www.readbyqxmd.com/read/27752147/identification-of-reliable-reference-genes-for-qrt-pcr-studies-of-the-developing-mouse-mammary-gland
#6
Anoeska Agatha Alida van de Moosdijk, Renée van Amerongen
Cell growth and differentiation are often driven by subtle changes in gene expression. Many challenges still exist in detecting these changes, particularly in the context of a complex, developing tissue. Quantitative reverse transcription polymerase chain reaction (qRT-PCR) allows relatively high-throughput evaluation of multiple genes and developmental time points. Proper quantification of gene expression levels by qRT-PCR requires normalization to one or more reference genes. Traditionally, these genes have been selected based on their presumed "housekeeping" function, with the implicit assumption that they are stably expressed over the entire experimental set...
October 18, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27743995/withdrawn-selection-of-reference-genes-in-five-types-of-human-tissues-for-normalization-of-gene-expression-studies-in-infectious-diseases
#7
Cristina Silva Meira-Strejevitch, Vera Lucia Pereira-Chioccola, Marta Marques Maia, Daise Damaris Carnietto de Hipólito, Hui-Tzu Lin Wang, Gabriela Motoie, Aparecida Helena de Souza Gomes, Cristina Takami Kanamura, Roosecelis Brasil Martines, Cinara Cássia Brandão de Mattos, Fábio Batista Frederico, Luiz Carlos de Mattos, Cinara Cássia Brandão de Mattos, Fábio Batista Frederico, Rubens Camargo Siqueira, Mariana Previato, Amanda Pires Barbosa, Fernando Henrique Antunes Murata
This article has been withdrawn at the request of the author(s) and/or editor. The Publisher apologizes for any inconvenience this may cause. The full Elsevier Policy on Article Withdrawal can be found at http://www.elsevier.com/locate/withdrawalpolicy.
October 12, 2016: Gene
https://www.readbyqxmd.com/read/27727313/endogenous-reference-genes-for-gene-expression-studies-on-bicuspid-aortic-valve-associated-aortopathy-in-humans
#8
Oliver J Harrison, Narain Moorjani, Christopher Torrens, Sunil K Ohri, Felino R Cagampang
Bicuspid aortic valve (BAV) disease is the most common congenital cardiac abnormality and predisposes patients to life-threatening aortic complications including aortic aneurysm. Quantitative real-time reverse transcription PCR (qRT-PCR) is one of the most commonly used methods to investigate underlying molecular mechanisms involved in aortopathy. The accuracy of the gene expression data is dependent on normalization by appropriate housekeeping (HK) genes, whose expression should remain constant regardless of aortic valve morphology, aortic diameter and other factors associated with aortopathy...
2016: PloS One
https://www.readbyqxmd.com/read/27521935/reference-gene-validation-for-quantification-of-gene-expression-during-final-oocyte-maturation-induced-by-diethylstilbestrol-and-di-2-ethylhexyl-phthalate-in-common-carp
#9
Yanyan Shi, Jie Lu, Yilei Wang, Shuhong Wang
Final oocyte maturation is the key step to successful spawning and fertilization. Quantitative real-time PCR (qPCR) is the technique of election to quantify the abundance of functional genes in such study. Reference gene is essential for correct interpretation of qPCR data. However, an ideal universal reference gene that is stable under all experimental circumstances has not been described. Researchers should validate their reference genes while performing qPCR analysis. The expression of 6 candidate reference genes: 18s rRNA, 28s rRNA, Cathepsin Z, Elongation factor 1-α, Glyceraldehyde-3-phosphate dehydrogenase and β-actin were investigated during final oocyte maturation induced by different compounds (DES and DEHP) in common carp (Cyprinus carpio)...
August 2016: Journal of Environmental Sciences (China)
https://www.readbyqxmd.com/read/27392023/evaluation-of-reference-genes-for-reverse-transcription-quantitative-pcr-studies-of-physiological-responses-in-the-ghost-moth-thitarodes-armoricanus-lepidoptera-hepialidae
#10
Guiqing Liu, Xuehong Qiu, Li Cao, Yi Zhang, Zubing Zhan, Richou Han
Reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) is the sensitive method to quantify the expression levels of target genes on the basis of endogenous control. An appropriate reference gene set for normalization is essential for reliable results. The ghost moth, Thitarodes armoricanus, a host species of a medicinal fungus, Ophiocordyceps sinensis, is an economically important member of the Lepidoptera. Recent studies have focused on the mechanism of adaptation of this species to its high-altitude environment and host immune response to O...
2016: PloS One
https://www.readbyqxmd.com/read/27383935/analysis-of-the-stability-of-housekeeping-gene-expression-in-the-left-cardiac-ventricle-of-rats-submitted-to-chronic-intermittent-hypoxia
#11
Guilherme Silva Julian, Renato Watanabe de Oliveira, Sergio Tufik, Jair Ribeiro Chagas
Obstructive sleep apnea (OSA) has been associated with oxidative stress and various cardiovascular consequences, such as increased cardiovascular disease risk. Quantitative real-time PCR is frequently employed to assess changes in gene expression in experimental models. In this study, we analyzed the effects of chronic intermittent hypoxia (an experimental model of OSA) on housekeeping gene expression in the left cardiac ventricle of rats. Analyses via four different approaches-use of the geNorm, BestKeeper, and NormFinder algorithms; and 2-ΔCt (threshold cycle) data analysis-produced similar results: all genes were found to be suitable for use, glyceraldehyde-3-phosphate dehydrogenase and 18S being classified as the most and the least stable, respectively...
May 2016: Jornal Brasileiro de Pneumologia: Publicaça̋o Oficial da Sociedade Brasileira de Pneumologia e Tisilogia
https://www.readbyqxmd.com/read/27308855/identification-of-reference-genes-for-quantitative-gene-expression-studies-in-a-non-model-tree-pistachio-pistacia-vera-l
#12
Maryam Moazzam Jazi, Effat Ghadirzadeh Khorzoghi, Christopher Botanga, Seyed Mahdi Seyedi
The tree species, Pistacia vera (P. vera) is an important commercial product that is salt-tolerant and long-lived, with a possible lifespan of over one thousand years. Gene expression analysis is an efficient method to explore the possible regulatory mechanisms underlying these characteristics. Therefore, having the most suitable set of reference genes is required for transcript level normalization under different conditions in P. vera. In the present study, we selected eight widely used reference genes, ACT, EF1α, α-TUB, β-TUB, GAPDH, CYP2, UBQ10, and 18S rRNA...
2016: PloS One
https://www.readbyqxmd.com/read/27210246/selection-of-reference-genes-for-gene-expression-studies-related-to-lung-injury-in-a-preterm-lamb-model
#13
Prue M Pereira-Fantini, Anushi E Rajapaksa, Regina Oakley, David G Tingay
Preterm newborns often require invasive support, however even brief periods of supported ventilation applied inappropriately to the lung can cause injury. Real-time quantitative reverse transcriptase-PCR (qPCR) has been extensively employed in studies of ventilation-induced lung injury with the reference gene 18S ribosomal RNA (18S RNA) most commonly employed as the internal control reference gene. Whilst the results of these studies depend on the stability of the reference gene employed, the use of 18S RNA has not been validated...
2016: Scientific Reports
https://www.readbyqxmd.com/read/27182699/a-toolbox-for-quantitative-gene-expression-in-varroa-destructor-rna-degradation-in-field-samples-and-systematic-analysis-of-reference-gene-stability
#14
Ewan M Campbell, Catriona H McIntosh, Alan S Bowman
Varroa destructor is the major pest of Apis mellifera and contributes to the global honey bee health crisis threatening food security. Developing new control strategies to combat Varroa will require the application of molecular biology, including gene expression studies by quantitative real-time reverse transcription-polymerase chain reaction (qRT-PCR). Both high quality RNA samples and suitable stable internal reference genes are required for accurate gene expression studies. In this study, ten candidate genes (succinate dehydrogenase (SDHA), NADH dehydrogenase (NADH), large ribsosmal subunit, TATA-binding protein, glyceraldehyde-3-phosphate dehydrogenase, 18S rRNA (18S), heat-shock protein 90 (HSP90), cyclophilin, α-tubulin, actin), were evaluated for their suitability as normalization genes using the geNorm, Normfinder, BestKeeper, and comparative ΔCq algorithims...
2016: PloS One
https://www.readbyqxmd.com/read/27173307/reference-gene-selection-for-gene-expression-studies-in-lily-using-quantitative-real-time-pcr
#15
M F Zhang, Q Liu, G X Jia
Quantitative real-time polymerase chain reaction (qRT-PCR) is an important technology used to analyze gene-expression levels. Reference genes, which are assumed to be expressed consistently across various developmental stages and in different tissues, were selected for expression level analysis. Using digital gene expression technology, we selected nine reference genes (18S, EF, CYCOL, SAND, GAPDH, ACTIN, BHLH, TIP, and Clathrin) as candidate reference genes for further study. Using three different analysis methods (GeNorm, NormFinder, and BestKeeper), a total of 144 lily (Lilium x formolongi "Raizan 3") samples were analyzed...
2016: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/27073537/evaluation-and-validation-of-suitable-reference-genes-for-reverse-transcription-quantitative-polymerase-chain-reaction-studies-in-cholangiocarcinoma-patients-and-cell-lines
#16
Jinghui Yang, Qiwei Yang, Shan Yu, Xuewen Zhang
Reverse transcription-quantitative polymerase chain reaction (RT-qPCR) has become a frequently used method in gene expression studies. The relative quantification method is an important and common method for the evaluation of RT-qPCR data. One of the key requirements of this method is to identify an applicable internal reference gene. However, to the best of our knowledge, no suitable reference genes have been identified for the genetic analysis of cholangiocarcinoma (CCA) in humans and cell lines. In the present study, screening was conducted using 12 common reference genes, which were selected in order to provide an experimental basis for the study of the gene expression in CCA patients and cell lines...
April 2016: Oncology Letters
https://www.readbyqxmd.com/read/27070752/the-importance-of-the-selection-of-appropriate-reference-genes-for-gene-expression-profiling-in-adrenal-medulla-or-sympathetic-ganglia-of-spontaneously-hypertensive-rat
#17
A Vavřínová, M Behuliak, J Zicha
Catecholaminergic system plays an important role in hypertension development. The available results on mRNA expression of catecholaminergic system genes in spontaneously hypertensive rats (SHR) are often contradictory. One of the possible causes might be the use of various reference genes as internal controls. In the present study, we searched for suitable reference genes in adrenal medulla or sympathetic ganglia of SHR and Wistar-Kyoto (WKY) rats, which would enable reliable comparison of mRNA expression between these two strains...
July 18, 2016: Physiological Research
https://www.readbyqxmd.com/read/27019788/evaluation-of-putative-reference-genes-for-quantitative-real-time-pcr-normalization-in-lilium-regale-during-development-and-under-stress
#18
Qiang Liu, Chi Wei, Ming-Fang Zhang, Gui-Xia Jia
Normalization to reference genes is the most common method to avoid bias in real-time quantitative PCR (qPCR), which has been widely used for quantification of gene expression. Despite several studies on gene expression, Lilium, and particularly L. regale, has not been fully investigated regarding the evaluation of reference genes suitable for normalization. In this study, nine putative reference genes, namely 18S rRNA, ACT, BHLH, CLA, CYP, EF1, GAPDH, SAND and TIP41, were analyzed for accurate quantitative PCR normalization at different developmental stages and under different stress conditions, including biotic (Botrytis elliptica), drought, salinity, cold and heat stress...
2016: PeerJ
https://www.readbyqxmd.com/read/27012054/identification-of-suitable-candidate-reference-genes-for-gene-expression-analysis-by-rt-qpcr-in-peripheral-blood-mononuclear-cells-of-chb-patients
#19
COMPARATIVE STUDY
Hao Zhang, Zi-shu Guan, Shi-he Guan, Kai Yang, Ying Pan, Yuan-yuan Wu, Ai-hua Wang, Bei-bei Sun, Jie Hou, Xuan-xuan Mu, Yu-feng Gao, Wei-sheng Cheng
BACKGROUND: Quantitative polymerase chain reaction (qPCR) analysis is a precise and effective method for the study of mRNA expression throughout the field of peripheral blood mononuclear cell (PBMC) research. However, the use of suitable reference genes for data normalization is critical to obtain meaningful and reproducible results. The present study aimed to identify the greatest reference genes for further research in PBMC of Chronic Hepatitis B (CHB) patients. METHODS: We assessed the expression stability of four commonly used reference genes (beta actin, beta-tubulin, 18S rRNA, GAPDH) in PBMC of CHB patients...
2016: Clinical Laboratory
https://www.readbyqxmd.com/read/26968891/comprehensive-selection-of-reference-genes-for-expression-studies-in-meniscus-injury-using-quantitative-real-time-pcr
#20
Mariana Ferreira Leal, Gustavo Gonçalves Arliani, Diego Costa Astur, Carlos Eduardo Franciozi, Pedro Debieux, Carlos Vicente Andreoli, Marília Cardoso Smith, Alberto de Castro Pochini, Benno Ejnisman, Moises Cohen
The meniscus plays critical roles in the knee function. Meniscal tears can lead to knee osteoarthritis. Gene expression analysis may be a useful tool for understanding meniscus tears, and reverse-transcription quantitative polymerase chain reaction (RT-qPCR) has become an effective method for such studies. However, this technique requires the use of suitable reference genes for data normalization. We evaluated the suitability of six reference genes (18S, ACTB, B2M, GAPDH, HPRT1 and TBP) using meniscus samples of (1) 19 patients with isolated meniscal tears, (2) 20 patients with meniscal tears and combined anterior cruciate ligament injury (ACL), and (3) 11 controls without meniscal tears...
June 10, 2016: Gene
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