IDEAS home Printed from https://ideas.repec.org/a/bla/stanee/v62y2008i3p364-373.html
   My bibliography  Save this article

The changing focus of microarray analysis

Author

Listed:
  • Nicola J. Armstrong

Abstract

In the biological sciences, the advent of microarray technology changed the way experiments were performed. Microarrays were the first mainstream high‐throughput technology, generating enormous amounts of data for both the biologist and the statistician to understand. Here, I follow my own experience in microarray analysis, starting during my time at EURANDOM with experimental design and continuing today in my present position at the Netherlands Cancer Institute where the exploitation of data from many different sources is hoped will give greater insight into different aspects of cancer.

Suggested Citation

  • Nicola J. Armstrong, 2008. "The changing focus of microarray analysis," Statistica Neerlandica, Netherlands Society for Statistics and Operations Research, vol. 62(3), pages 364-373, August.
  • Handle: RePEc:bla:stanee:v:62:y:2008:i:3:p:364-373
    DOI: 10.1111/j.1467-9574.2008.00399.x
    as

    Download full text from publisher

    File URL: https://doi.org/10.1111/j.1467-9574.2008.00399.x
    Download Restriction: no

    File URL: https://libkey.io/10.1111/j.1467-9574.2008.00399.x?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    1. Smyth Gordon K, 2004. "Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 3(1), pages 1-28, February.
    Full references (including those not matched with items on IDEAS)

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Aaron C Ericsson & J Wade Davis & William Spollen & Nathan Bivens & Scott Givan & Catherine E Hagan & Mark McIntosh & Craig L Franklin, 2015. "Effects of Vendor and Genetic Background on the Composition of the Fecal Microbiota of Inbred Mice," PLOS ONE, Public Library of Science, vol. 10(2), pages 1-19, February.
    2. Sébastien L Floor & Aline Hebrant & Jaime M Pita & Manuel Saiselet & Christophe Trésallet & Frederick Libert & Guy Andry & Jacques E Dumont & Wilma C van Staveren & Carine Maenhaut, 2014. "MiRNA Expression May Account for Chronic but Not for Acute Regulation of mRNA Expression in Human Thyroid Tumor Models," PLOS ONE, Public Library of Science, vol. 9(11), pages 1-9, November.
    3. Bilgrau, Anders Ellern & Eriksen, Poul Svante & Rasmussen, Jakob Gulddahl & Johnsen, Hans Erik & Dybkaer, Karen & Boegsted, Martin, 2016. "GMCM: Unsupervised Clustering and Meta-Analysis Using Gaussian Mixture Copula Models," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 70(i02).
    4. Hossain, Ahmed & Beyene, Joseph & Willan, Andrew R. & Hu, Pingzhao, 2009. "A flexible approximate likelihood ratio test for detecting differential expression in microarray data," Computational Statistics & Data Analysis, Elsevier, vol. 53(10), pages 3685-3695, August.
    5. Xiaohong Li & Guy N Brock & Eric C Rouchka & Nigel G F Cooper & Dongfeng Wu & Timothy E O’Toole & Ryan S Gill & Abdallah M Eteleeb & Liz O’Brien & Shesh N Rai, 2017. "A comparison of per sample global scaling and per gene normalization methods for differential expression analysis of RNA-seq data," PLOS ONE, Public Library of Science, vol. 12(5), pages 1-22, May.
    6. Kerr Kathleen F., 2012. "Optimality Criteria for the Design of 2-Color Microarray Studies," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 11(1), pages 1-9, January.
    7. Ambroise Jérôme & Bearzatto Bertrand & Robert Annie & Macq Benoit & Gala Jean-Luc, 2012. "Combining Multiple Laser Scans of Spotted Microarrays by Means of a Two-Way ANOVA Model," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 11(3), pages 1-20, February.
    8. J. McClatchy & R. Strogantsev & E. Wolfe & H. Y. Lin & M. Mohammadhosseini & B. A. Davis & C. Eden & D. Goldman & W. H. Fleming & P. Conley & G. Wu & L. Cimmino & H. Mohammed & A. Agarwal, 2023. "Clonal hematopoiesis related TET2 loss-of-function impedes IL1β-mediated epigenetic reprogramming in hematopoietic stem and progenitor cells," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    9. Elizabeth A Osterndorff-Kahanek & Gayatri R Tiwari & Marcelo F Lopez & Howard C Becker & R Adron Harris & R Dayne Mayfield, 2018. "Long-term ethanol exposure: Temporal pattern of microRNA expression and associated mRNA gene networks in mouse brain," PLOS ONE, Public Library of Science, vol. 13(1), pages 1-25, January.
    10. Alexandra Gyurdieva & Stefan Zajic & Ya-Fang Chang & E. Andres Houseman & Shan Zhong & Jaegil Kim & Michael Nathenson & Thomas Faitg & Mary Woessner & David C. Turner & Aisha N. Hasan & John Glod & Ro, 2022. "Biomarker correlates with response to NY-ESO-1 TCR T cells in patients with synovial sarcoma," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
    11. Sora Yoon & Seon-Young Kim & Dougu Nam, 2016. "Improving Gene-Set Enrichment Analysis of RNA-Seq Data with Small Replicates," PLOS ONE, Public Library of Science, vol. 11(11), pages 1-16, November.
    12. Yu Lianbo & Gulati Parul & Fernandez Soledad & Pennell Michael & Kirschner Lawrence & Jarjoura David, 2011. "Fully Moderated T-statistic for Small Sample Size Gene Expression Arrays," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 10(1), pages 1-22, September.
    13. Petra Massoner & Karl G Kugler & Karin Unterberger & Ruprecht Kuner & Laurin A J Mueller & Maria Fälth & Georg Schäfer & Christof Seifarth & Simone Ecker & Irmgard Verdorfer & Armin Graber & Holger Sü, 2013. "Characterization of Transcriptional Changes in ERG Rearrangement-Positive Prostate Cancer Identifies the Regulation of Metabolic Sensors Such as Neuropeptide Y," PLOS ONE, Public Library of Science, vol. 8(2), pages 1-11, February.
    14. Chaofeng Yuan & Wensheng Zhu & Xuming He & Jianhua Guo, 2019. "A mixture factor model with applications to microarray data," TEST: An Official Journal of the Spanish Society of Statistics and Operations Research, Springer;Sociedad de Estadística e Investigación Operativa, vol. 28(1), pages 60-76, March.
    15. Debajyoti Ghosh & Lili Ding & Umasundari Sivaprasad & Esmond Geh & Jocelyn Biagini Myers & Jonathan A Bernstein & Gurjit K Khurana Hershey & Tesfaye B Mersha, 2015. "Multiple Transcriptome Data Analysis Reveals Biologically Relevant Atopic Dermatitis Signature Genes and Pathways," PLOS ONE, Public Library of Science, vol. 10(12), pages 1-23, December.
    16. Nan Li & Matthew N. McCall & Zhijin Wu, 2017. "Establishing Informative Prior for Gene Expression Variance from Public Databases," Statistics in Biosciences, Springer;International Chinese Statistical Association, vol. 9(1), pages 160-177, June.
    17. Brian Caffo & Liu Dongmei & Giovanni Parmigiani, 2004. "Power Conjugate Multilevel Models with Applications to Genomics," Johns Hopkins University Dept. of Biostatistics Working Paper Series 1062, Berkeley Electronic Press.
    18. Mark Pinese & Christopher J Scarlett & James G Kench & Emily K Colvin & Davendra Segara & Susan M Henshall & Robert L Sutherland & Andrew V Biankin, 2009. "Messina: A Novel Analysis Tool to Identify Biologically Relevant Molecules in Disease," PLOS ONE, Public Library of Science, vol. 4(4), pages 1-7, April.
    19. Nott, David J. & Yu, Zeming & Chan, Eva & Cotsapas, Chris & Cowley, Mark J. & Pulvers, Jeremy & Williams, Rohan & Little, Peter, 2007. "Hierarchical Bayes variable selection and microarray experiments," Journal of Multivariate Analysis, Elsevier, vol. 98(4), pages 852-872, April.
    20. Yexuan Deng & Sarah T. Diepstraten & Margaret A. Potts & Göknur Giner & Stephanie Trezise & Ashley P. Ng & Gerry Healey & Serena R. Kane & Amali Cooray & Kira Behrens & Amy Heidersbach & Andrew J. Kue, 2022. "Generation of a CRISPR activation mouse that enables modelling of aggressive lymphoma and interrogation of venetoclax resistance," Nature Communications, Nature, vol. 13(1), pages 1-17, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:bla:stanee:v:62:y:2008:i:3:p:364-373. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Wiley Content Delivery (email available below). General contact details of provider: http://www.blackwellpublishing.com/journal.asp?ref=0039-0402 .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.