IDEAS home Printed from https://ideas.repec.org/a/plo/pone00/0010398.html
   My bibliography  Save this article

Cancer Reduces Transcriptome Specialization

Author

Listed:
  • Octavio Martínez
  • M Humberto Reyes-Valdés
  • Luis Herrera-Estrella

Abstract

A central goal of cancer biology is to understand how cells from this family of genetic diseases undergo specific morphological and physiological changes and regress to a de-regulated state of the cell cycle. The fact that tumors are unable to perform most of the specific functions of the original tissue led us to hypothesize that the degree of specialization of the transcriptome of cancerous tissues must be less than their normal counterparts. With the aid of information theory tools, we analyzed four datasets derived from transcriptomes of normal and tumor tissues to quantitatively test the hypothesis that cancer reduces transcriptome specialization. Here, we show that the transcriptional specialization of a tumor is significantly less than the corresponding normal tissue and comparable with the specialization of dedifferentiated embryonic stem cells. Furthermore, we demonstrate that the drop in specialization in cancerous tissues is largely due to a decrease in expression of genes that are highly specific to the normal organ. This approach gives us a better understanding of carcinogenesis and offers new tools for the identification of genes that are highly influential in cancer progression.

Suggested Citation

  • Octavio Martínez & M Humberto Reyes-Valdés & Luis Herrera-Estrella, 2010. "Cancer Reduces Transcriptome Specialization," PLOS ONE, Public Library of Science, vol. 5(5), pages 1-10, May.
    • Handle: RePEc:plo:pone00:0010398
    DOI: 10.1371/journal.pone.0010398
    as

    Download full text from publisher

    File URL: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0010398
    Download Restriction: no
    File URL: https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0010398&type=printable
    Download Restriction: no
    File URL: https://libkey.io/10.1371/journal.pone.0010398?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. Tannishtha Reya & Sean J. Morrison & Michael F. Clarke & Irving L. Weissman, 2001. "Stem cells, cancer, and cancer stem cells," Nature, Nature, vol. 414(6859), pages 105-111, November.
    2. Philip A. Beachy & Sunil S. Karhadkar & David M. Berman, 2004. "Tissue repair and stem cell renewal in carcinogenesis," Nature, Nature, vol. 432(7015), pages 324-331, November.
    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. Zeinab Tavasoli & Parviz Abdolmaleki & Seyed Javad Mowla & Faezeh Ghanati & Amir Sabet Sarvestani, 2009. "Investigation of the effects of static magnetic field on apoptosis in bone marrow stem cells of rat," Environment Systems and Decisions, Springer, vol. 29(2), pages 220-224, June.
    2. Siegmund Kimberly D. & Marjoram Paul & Shibata Darryl, 2008. "Modeling DNA Methylation in a Population of Cancer Cells," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 7(1), pages 1-23, June.
    3. Meacci, Luca & Primicerio, Mario & Buscaglia, Gustavo Carlos, 2021. "Growth of tumours with stem cells: The effect of crowding and ageing of cells," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 570(C).
    4. Shuyan Liu & Chengfei Liu & Xiaoyun Min & Yuanyuan Ji & Na Wang & Dan Liu & Jiangyi Cai & Ke Li, 2013. "Prognostic Value of Cancer Stem Cell Marker Aldehyde Dehydrogenase in Ovarian Cancer: A Meta-Analysis," PLOS ONE, Public Library of Science, vol. 8(11), pages 1-1, November.
    5. Nikolay Bessonov & Guillaume Pinna & Andrey Minarsky & Annick Harel-Bellan & Nadya Morozova, 2019. "Mathematical modeling reveals the factors involved in the phenomena of cancer stem cells stabilization," PLOS ONE, Public Library of Science, vol. 14(11), pages 1-24, November.
    6. Christopher R S Banerji & Simone Severini & Carlos Caldas & Andrew E Teschendorff, 2015. "Intra-Tumour Signalling Entropy Determines Clinical Outcome in Breast and Lung Cancer," PLOS Computational Biology, Public Library of Science, vol. 11(3), pages 1-23, March.
    7. Qing Chen & Xin Zhang & Wei-Min Li & Yu-Qiang Ji & Hao-Zhe Cao & Pengsheng Zheng, 2014. "Prognostic Value of LGR5 in Colorectal Cancer: A Meta-Analysis," PLOS ONE, Public Library of Science, vol. 9(9), pages 1-9, September.
    8. Peter Kovacic & Ratnasamy Somanathan, 2017. "Unifying Mechanism for Nutrients as Anticancer Agents: Electron Transfer, Reactive Oxygen Species and Oxidative Stress," Global Journal of Health Science, Canadian Center of Science and Education, vol. 9(8), pages 1-66, August.
    9. Isabelle Bartram & Jonathan M Jeschke, 2019. "Do cancer stem cells exist? A pilot study combining a systematic review with the hierarchy-of-hypotheses approach," PLOS ONE, Public Library of Science, vol. 14(12), pages 1-12, December.
    10. Tang Peng & Ma Qinghua & Tang Zhenning & Wang Kaifa & Jiang Jun, 2011. "Long-Term Sphere Culture Cannot Maintain a High Ratio of Cancer Stem Cells: A Mathematical Model and Experiment," PLOS ONE, Public Library of Science, vol. 6(11), pages 1-6, November.
    11. N. Timurkaan & H. Eroksuz & A. Cevik & B. Karabulut, 2016. "Cutaneous leiomyosarcoma with osteoid metaplasia in a budgerigar (Melopsittacus undulatus): a case report," Veterinární medicína, Czech Academy of Agricultural Sciences, vol. 61(9), pages 533-537.
    12. Tin-Lok Wong & Jia-Jian Loh & Shixun Lu & Helen H. N. Yan & Hoi Cheong Siu & Ren Xi & Dessy Chan & Max J. F. Kam & Lei Zhou & Man Tong & John A. Copland & Leilei Chen & Jing-Ping Yun & Suet Yi Leung &, 2023. "ADAR1-mediated RNA editing of SCD1 drives drug resistance and self-renewal in gastric cancer," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
    13. Vincenzo Salemme & Mauro Vedelago & Alessandro Sarcinella & Federico Moietta & Alessio Piccolantonio & Enrico Moiso & Giorgia Centonze & Marta Manco & Andrea Guala & Alessia Lamolinara & Costanza Ange, 2023. "p140Cap inhibits β-Catenin in the breast cancer stem cell compartment instructing a protective anti-tumor immune response," Nature Communications, Nature, vol. 14(1), pages 1-22, December.
    14. Chahrazed Benosman & Bedr’Eddine Aïnseba & Arnaud Ducrot, 2015. "Optimization of Cytostatic Leukemia Therapy in an Advection–Reaction–Diffusion Model," Journal of Optimization Theory and Applications, Springer, vol. 167(1), pages 296-325, October.
    15. Junho Lee & Jin Su Kim & Yangjin Kim, 2021. "Atorvastatin-mediated rescue of cancer-related cognitive changes in combined anticancer therapies," PLOS Computational Biology, Public Library of Science, vol. 17(10), pages 1-28, October.
    16. Deeptha Ishwar & Rupa Haldavnekar & Krishnan Venkatakrishnan & Bo Tan, 2022. "Minimally invasive detection of cancer using metabolic changes in tumor-associated natural killer cells with Oncoimmune probes," Nature Communications, Nature, vol. 13(1), pages 1-20, December.
    17. Callisthenis Yiannis & Massimo Mascolo & Michele Davide Mignogna & Silvia Varricchio & Valentina Natella & Gaetano De Rosa & Roberto Lo Giudice & Cosimo Galletti & Rita Paolini & Antonio Celentano, 2021. "Expression Profile of Stemness Markers CD138, Nestin and Alpha-SMA in Ameloblastic Tumours," IJERPH, MDPI, vol. 18(8), pages 1-10, April.
    18. Sophie G. Kellaway & Sandeep Potluri & Peter Keane & Helen J. Blair & Luke Ames & Alice Worker & Paulynn S. Chin & Anetta Ptasinska & Polina K. Derevyanko & Assunta Adamo & Daniel J. L. Coleman & Naee, 2024. "Leukemic stem cells activate lineage inappropriate signalling pathways to promote their growth," Nature Communications, Nature, vol. 15(1), pages 1-22, December.
    19. L. Paige Ferguson & Jovylyn Gatchalian & Matthew L. McDermott & Mari Nakamura & Kendall Chambers & Nirakar Rajbhandari & Nikki K. Lytle & Sara Brin Rosenthal & Michael Hamilton & Sonia Albini & Martin, 2023. "Smarcd3 is an epigenetic modulator of the metabolic landscape in pancreatic ductal adenocarcinoma," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    20. Lina Liu & Ana Vujovic & Nandan P. Deshpande & Shashank Sathe & Govardhan Anande & He Tian Tony Chen & Joshua Xu & Mark D. Minden & Gene W. Yeo & Ashwin Unnikrishnan & Kristin J. Hope & Yu Lu, 2022. "The splicing factor RBM17 drives leukemic stem cell maintenance by evading nonsense-mediated decay of pro-leukemic factors," 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:plo:pone00:0010398. 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: plosone (email available below). General contact details of provider: https://journals.plos.org/plosone/ .

    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.