IDEAS home Printed from https://ideas.repec.org/a/gam/jdataj/v2y2017i2p15-d97610.html
   My bibliography  Save this article

Demonstration Study: A Protocol to Combine Online Tools and Databases for Identifying Potentially Repurposable Drugs

Author

Listed:
  • Aditi Chattopadhyay

    (Grade 12, Upper St. Clair High School, Pittsburgh, PA 15241, USA)

  • Madhavi K. Ganapathiraju

    (Department of Biomedical Informatics and Intelligent Systems Program, University of Pittsburgh, Pittsburgh, PA 15206, USA)

Abstract

Traditional methods for discovery and development of new drugs can be very time-consuming and expensive processes because they include several stages, such as compound identification, pre-clinical and clinical trials before the drug is approved by the U.S. Food and Drug Administration (FDA). Therefore, drug repurposing, namely using currently FDA-approved drugs as therapeutics for other diseases than what they are originally prescribed for, is emerging to be a faster and more cost-effective alternative to current drug discovery methods. In this paper, we have described a three-step in silico protocol for analyzing transcriptomics data using online databases and bioinformatics tools for identifying potentially repurposable drugs. The efficacy of this protocol was evaluated by comparing its predictions with the findings of two case studies of recently reported repurposed drugs: HIV treating drug zidovudine for the treatment of dry age-related macular degeneration and the antidepressant imipramine for small-cell lung carcinoma. The proposed protocol successfully identified the published findings, thus demonstrating the efficacy of this method. In addition, it also yielded several novel predictions that have not yet been published, including the finding that imipramine could potentially treat Severe Acute Respiratory Syndrome (SARS), a disease that currently does not have any treatment or vaccine. Since this in silico protocol is simple to use and does not require advanced computer skills, we believe any motivated participant with access to these databases and tools would be able to apply it to large datasets to identify other potentially repurposable drugs in the future.

Suggested Citation

  • Aditi Chattopadhyay & Madhavi K. Ganapathiraju, 2017. "Demonstration Study: A Protocol to Combine Online Tools and Databases for Identifying Potentially Repurposable Drugs," Data, MDPI, vol. 2(2), pages 1-11, May.
  • Handle: RePEc:gam:jdataj:v:2:y:2017:i:2:p:15-:d:97610
    as

    Download full text from publisher

    File URL: https://www.mdpi.com/2306-5729/2/2/15/pdf
    Download Restriction: no

    File URL: https://www.mdpi.com/2306-5729/2/2/15/
    Download Restriction: no
    ---><---

    References listed on IDEAS

    as
    1. Curtis R. Chong & David J. Sullivan, 2007. "New uses for old drugs," Nature, Nature, vol. 448(7154), pages 645-646, August.
    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. Sternitzke, Christian, 2013. "An exploratory analysis of patent fencing in pharmaceuticals: The case of PDE5 inhibitors," Research Policy, Elsevier, vol. 42(2), pages 542-551.
    2. Hanlin Wang & Guanghao Luo & Xiaobei Hu & Gaoya Xu & Tao Wang & Minmin Liu & Xiaohui Qiu & Jianan Li & Jingfeng Fu & Bo Feng & Yutong Tu & Weijuan Kan & Chang Wang & Ran Xu & Yubo Zhou & Jianmin Yang , 2023. "Targeting C/EBPα overcomes primary resistance and improves the efficacy of FLT3 inhibitors in acute myeloid leukaemia," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
    3. Mengyun Yang & Huimin Luo & Yaohang Li & Fang-Xiang Wu & Jianxin Wang, 2019. "Overlap matrix completion for predicting drug-associated indications," PLOS Computational Biology, Public Library of Science, vol. 15(12), pages 1-21, December.
    4. Sternitzke, Christian, 2010. "Knowledge sources, patent protection, and commercialization of pharmaceutical innovations," Research Policy, Elsevier, vol. 39(6), pages 810-821, July.
    5. Irati Macaya & Marta Roman & Connor Welch & Rodrigo Entrialgo-Cadierno & Marina Salmon & Alba Santos & Iker Feliu & Joanna Kovalski & Ines Lopez & Maria Rodriguez-Remirez & Sara Palomino-Echeverria & , 2023. "Signature-driven repurposing of Midostaurin for combination with MEK1/2 and KRASG12C inhibitors in lung cancer," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
    6. Stefano Tiziani & Alessia Lodi & Farhat L Khanim & Mark R Viant & Christopher M Bunce & Ulrich L Günther, 2009. "Metabolomic Profiling of Drug Responses in Acute Myeloid Leukaemia Cell Lines," PLOS ONE, Public Library of Science, vol. 4(1), pages 1-10, January.

    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:gam:jdataj:v:2:y:2017:i:2:p:15-:d:97610. 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: MDPI Indexing Manager (email available below). General contact details of provider: https://www.mdpi.com .

    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.