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Reference Genes for Addressing Gene Expression of Bladder Cancer Cell Models under Hypoxia: A Step Towards Transcriptomic Studies

Luís Lima, Cristiana Gaiteiro, Andreia Peixoto, Janine Soares, Manuel Neves, Lúcio Lara Santos, José Alexandre Ferreira, Gayle E. Woloschak
2016 PLoS ONE  
Gene expression analysis by qRT-PCR is a powerful tool for cancer cells phenotypic characterization.  ...  Herein, we aim to establish the best reference genes for studying the effects of hypoxia on bladder cancer cells.  ...  Three of the most studied bladder cancer cell lines (T24, 5637, and HT1376), reflecting different molecular pathways for cell invasion (FGFR3/CCND1and E2F3/RB1), were chosen envisaging the identification  ... 
doi:10.1371/journal.pone.0166120 pmid:27835695 pmcid:PMC5106008 fatcat:s7sczsnwy5djvavrqtcqgxhpwa

Hypoxia increases membrane metallo-endopeptidase expression in a novel lung cancer ex vivo model – role of tumor stroma cells

Katharina Leithner, Christoph Wohlkoenig, Elvira Stacher, Jörg Lindenmann, Nicole A Hofmann, Birgit Gallé, Christian Guelly, Franz Quehenberger, Philipp Stiegler, Freyja-Maria Smolle-Jüttner, Sjaak Philipsen, Helmut H Popper (+3 others)
2014 BMC Cancer  
Conclusions: The novel ex vivo model allowed for the first time to analyze hypoxia-regulated gene expression in preserved human lung cancer tissue.  ...  While most of these genes were up-regulated by hypoxia also in NSCLC cell lines, membrane metallo-endopeptidase (MME, neprilysin, CD10) expression was not increased in hypoxia in NSCLC cell lines, but  ...  Acknowledgements We are grateful to Alexandra Bertsch and Elisabeth Pöllitzer, Division of Pulmonology, and Karin Wagner, Core Facility Molecular Biology, Medical University of Graz, Austria, for excellent  ... 
doi:10.1186/1471-2407-14-40 pmid:24460801 pmcid:PMC3905926 fatcat:b5gpipx4xrgl7aakedixn52kji

FAM13A as a Novel Hypoxia-Induced Gene in Non-Small Cell Lung Cancer

Iwona Ziółkowska-Suchanek, Maria Mosor, Marta Podralska, Katarzyna Iżykowska, Piotr Gabryel, Wojciech Dyszkiewicz, Ryszard Słomski, Jerzy Nowak
2017 Journal of Cancer  
Three cell lines: non-small cell lung cancer (A549, CORL-105), human lung fibroblasts (HL) and 37 lung cancer tissue fragments were analyzed.  ...  The expression of FAM13A was significantly up-regulated by hypoxia in two lung cancer cell lines (A549, CORL-105, P<0.001), both at the level of protein and mRNA, and in lung cancer tissue fragments (P  ...  Global gene expression profiling on three tumor cell lines (melanoma, prostate and ovarian cancer), have indicated the statistically increase in FAM13A mRNA expression under chronic hypoxia conditions  ... 
doi:10.7150/jca.20342 pmid:29187867 pmcid:PMC5705994 fatcat:um7mjmorcvawvkvjix3iryvlr4

Global Gene Expression Profiling in Three Tumor Cell Lines Subjected to Experimental Cycling and Chronic Hypoxia

Magdalena Olbryt, Anna Habryka, Sebastian Student, Michał Jarząb, Tomasz Tyszkiewicz, Katarzyna Marta Lisowska, Marianne Koritzinsky
2014 PLoS ONE  
We analyzed in vitro gene expression profile in three human cancer cell lines (melanoma, ovarian cancer, and prostate cancer) exposed to experimental chronic or transient hypoxia conditions.  ...  As expected, the cell-type specific variability in response to hypoxia was significant. However, the expression of 240 probe sets was altered in all 3 cell lines.  ...  Herein, we investigated the influence of cycling and chronic hypoxia on gene expression profile in three cancer cell lines, using a microarray platform.  ... 
doi:10.1371/journal.pone.0105104 pmid:25122487 pmcid:PMC4133353 fatcat:4skh246jzbepdbveklavzz4toa

HER2 regulates HIF-2α and drives an increased hypoxic response in breast cancer

Edward J. Jarman, Carol Ward, Arran K. Turnbull, Carlos Martinez-Perez, James Meehan, Chrysi Xintaropoulou, Andrew H. Sims, Simon P. Langdon
2019 Breast Cancer Research  
Tumour hypoxia is a driver of breast cancer progression associated with worse prognosis and more aggressive disease.  ...  Despite this, there is still limited understanding on how HER receptor signalling interacts with HIF activity to contribute to breast cancer progression in the context of tumour hypoxia.  ...  Funding EJ would like to thank the Medical Research Council for funding this work. CW and JM are supported by the EPSRC-funded IMPACT project grant  ... 
doi:10.1186/s13058-019-1097-0 pmid:30670058 pmcid:PMC6343358 fatcat:5rsb3xv6i5hinbynj7atzaifjm

The prognostic value of temporal in vitro and in vivo derived hypoxia gene-expression signatures in breast cancer

Maud H.W. Starmans, Kenneth C. Chu, Syed Haider, Francis Nguyen, Renaud Seigneuric, Michael G. Magagnin, Marianne Koritzinsky, Arek Kasprzyk, Paul C. Boutros, Bradly G. Wouters, Philippe Lambin
2012 Radiotherapy and Oncology  
Materials and methods: Transcriptome profiling was performed for three cell lines derived from diverse tumour-types after hypoxic exposure at eight time-points, which include a normoxic time-point.  ...  The prognostic value of hypoxia-repressed genes is likely a surrogate for the known importance of proliferation in breast cancer outcome.  ...  Gene-expression profiles for seven genes in each of the three cell lines, where each gene is from a distinct cluster.  ... 
doi:10.1016/j.radonc.2012.02.002 pmid:22356756 fatcat:fgsmpfjc3nd2fmmjkgjkpr2xaq

Transcriptome profiling of the interconnection of pathways involved in malignant transformation and response to hypoxia

Frida Danielsson, Erik Fasterius, Devin Sullivan, Linnea Hases, Kemal Sanli, Cheng Zhang, Adil Mardinoglu, Cristina Al-Khalili, Mikael Huss, Mathias Uhlén, Cecilia Williams, Emma Lundberg
2018 OncoTarget  
The transformed cells displayed a distinct capability of metabolic switching, reflected in reversed gene expression patterns for several genes involved in oxidative phosphorylation and glycolytic pathways  ...  By transcriptome profiling under atmospheric and moderate hypoxic (3% O 2 ) conditions, we observed that despite being highly similar, the four cell lines of the BJ model responded strikingly different  ...  By comparing differential gene expression regulation across the model, we explored how the different stages in the BJ cell model respond to moderate hypoxia.  ... 
doi:10.18632/oncotarget.24808 pmid:29731978 pmcid:PMC5929421 fatcat:73srhk5bgfayxldaji7oqqalom

Identification of appropriate housekeeping genes for quantitative RT-PCR analysis in MDA-MB-231 and NCI-H460 human cancer cell lines under hypoxia and serum deprivation

2018 Journal of Molecular and Clinical Medicine  
Our results highlight the importance of the selection of the housekeeping genes in cancer cells subjected to different physiological stresses, such as hypoxia and serum deprivation.  ...  Given the relevance of a reliable and accurate normalization, we herein aimed to identify the appropriate housekeeping genes for breast and lung cancer cell lines cultured under hypoxia and/or serum deprivation  ...  In the present study, we selected the most commonly used triple negative breast cancer cell line (MDA-MB-231) and a broadly used non-small cell lung cancer cell line (NCI-H460), and applied three different  ... 
doi:10.31083/j.jmcm.2018.03.001 fatcat:2xm3qdgcibemfpbgkerltx2tsm

RadiationGeneSigDB: A database of oxic and hypoxic radiation response gene signatures and their utility in identification of hypoxia-regulated MicroRNA [article]

Venkata Manem, Andrew Dhawan
2018 bioRxiv   pre-print
We present the utility of this database through three case studies: i) comparing breast cancer oxic signatures in cell line data vs. patient data; ii) comparing the similarity of head and neck cancer hypoxia  ...  This valuable, curated repertoire of published gene expression signatures provides a motivating example for how to search for similarities in radiation response for tumors arising from different tissues  ...  Datasets Cancer cell lines were profiled at the genomic level and the processed data are available for download from a public database, The Cancer Cell Line Encyclopedia (CCLE) [6] .  ... 
doi:10.1101/455345 fatcat:lsr2aavgpzbczd24ipthfepm5m

3D hydrogel breast cancer models for studying the effects of hypoxia on epithelial to mesenchymal transition

Ying Wang, Sameer Mirza, Shaohua Wu, Jiping Zeng, Wen Shi, Hamid Band, Vimla Band, Bin Duan
2018 OncoTarget  
Taken together, these results validate the use of hydrogels based models to examine hypoxia related EMT in breast cancer cells.  ...  Lastly, as a validation of this model for future screen of therapeutic agents, we demonstrated that LOX inhibitor exhibited a significant decrease in breast cancer cell viability, migration, and EMT.  ...  DISCUSSION Three dimensional breast cancer cell models are becoming increasingly popular to recreate a cancer-like microenvironment for better understanding of cancer cell behavior, identifying potential  ... 
doi:10.18632/oncotarget.25891 pmid:30181809 pmcid:PMC6114943 fatcat:r5jb2o4bfreydexnftcqff2eyy

Genomic alterations underlie a pan-cancer metabolic shift associated with tumour hypoxia

Syed Haider, Alan McIntyre, Ruud G. P. M. van Stiphout, Laura M. Winchester, Simon Wigfield, Adrian L. Harris, Francesca M. Buffa
2016 Genome Biology  
in maintaining cell survival under hypoxia.  ...  Interestingly, this signature is strongly associated with hypoxia, with nine out of ten cancer types showing increased expression and five out of ten cancer types showing increased gain/amplification of  ...  Acknowledgements This study makes use of data generated by the Molecular Taxonomy of Breast Cancer International Consortium, which was funded by Cancer Research UK and the British Columbia Cancer Agency  ... 
doi:10.1186/s13059-016-0999-8 pmid:27358048 pmcid:PMC4926297 fatcat:dom5vj7sxjbwnkg4imhvez5tey

Gene-Viral Cancer Therapy Using Dual-Regulated Oncolytic Adenovirus with Antiangiogenesis Gene for Increased Efficacy

C. Su, M. Na, J. Chen, X. Wang, Y. Liu, W. Wang, Q. Zhang, L. Li, J. Long, X. Liu, M. Wu, X. Fan (+1 others)
2008 Molecular Cancer Research  
Three weeks later, it led to significant inhibition of xenograft tumor growth due to the combined effects of viral oncolytic therapy and antiangiogenesis gene therapy.  ...  However, because of their replicative capacity, the importance of cancer specificity for CRADs needs to be further emphasized.  ...  Acknowledgments We thank Lihua Jiang and Yanzhen Qian for assistance with cell culture in our laboratory and Jianzhong Gu (Shanghai Experimental Animal Center, Chinese Academy of Sciences) for help with  ... 
doi:10.1158/1541-7786.mcr-07-0073 pmid:18344493 fatcat:afg6ovvc2rbzjlyvuuohhmrh2a

A Novel Predictive Model for Adrenocortical Carcinoma Based on Hypoxia- and Ferroptosis-Related Gene Expression

Tianyue Zhang, Xiaoxiao Song, Jie Qiao, Ruiliang Zhu, Yuezhong Ren, Peng-Fei Shan
2022 Frontiers in Medicine  
BackgroundThe impact of hypoxia on ferroptosis is important in cancer proliferation, but no predictive model combining hypoxia and ferroptosis for adrenocortical carcinoma (ACC) has been reported.  ...  Ferroptosis-related genes exhibited distinct expression patterns in the three subtypes. A predictive model combining hypoxia- and ferroptosis-related gene expression was constructed.  ...  Furthermore, the expression profile of ferroptosis-related genes differed significantly among the three hypoxia-related molecular subtypes.  ... 
doi:10.3389/fmed.2022.856606 fatcat:rubeudbc2jdztkgsomfcszuwkm

EP-2056: Preclinical investigation of hypoxia induced genes in different prostate cancer cell lines

T. Wittenborn, S. Nielsen, M. Busk, M.R. Horsman, J. Overgaard, J. Alsner, B.S. Sørensen
2016 Radiotherapy and Oncology  
Conclusion: In this study we investigated the 15 gene hypoxic profile in three different prostate cancer cell lines.  ...  In the current study we investigated the 15 gene profile in different prostate cancer cell lines.  ... 
doi:10.1016/s0167-8140(16)33307-2 fatcat:5ropcyv5njfvzf4557eyvrdnpu

The effect of hypoxia on PD-L1 expression in bladder cancer

Vicky Smith, Debayan Mukherjee, Sapna Lunj, Ananya Choudhury, Peter Hoskin, Catharine West, Tim Illidge
2021 BMC Cancer  
Materials and methods Three human muscle-invasive bladder cancer cell lines (T24, J82, UMUC3) were cultured in normoxia (20% oxygen) or hypoxia (1 and 0.1% oxygen) for 24 h.  ...  In vitro PD-L1 expression was affected by cell density and decreased PD-L1 expression was observed after culture in hypoxia in muscle-invasive bladder cancer cell lines.  ...  CRUK MI Molecular Biology Core Facilities provided support and use of equipment.  ... 
doi:10.1186/s12885-021-09009-7 pmid:34819027 pmcid:PMC8613983 fatcat:pbnfkoditbexxeqr6pbv6rwyeq
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