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The Potential of Single Cell RNA-Sequencing Data for the Prediction of Gastric Cancer Serum Biomarkers

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Mathematical and Computational Oncology (ISMCO 2020)

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Abstract

Gastric cancer (GC) is the sixth most common worldwide malignancy and the third leading cancer cause of death. Early diagnosis and effective after-surgical monitoring can significantly improve survival rates. Previous studies have revealed several serum biomarkers that are elevated in GC patients, including CEA, CA19-9, and CA72-4. However, sensitivity of these biomarkers is below 30%. Identification of more sensitive and specific to GC markers is critical for individualized therapy of this disease. Here we developed an approach for single-cell transcriptomic data analysis that identifies secretory proteins that are abundantly expressed in GC cells and that could be measurable in the blood. Using early GC scRNA-seq data, we identified 19 secretory proteins significantly overexpressed in GC cells. Notably, 4 proteins (IL32, KLK10, KLK7, OLFM4) have demonstrated more superior sensitivity in comparison to conventional serum markers in previous studies. Moreover, 2 proteins, F12 and CFD, were not previously associated with GC and were not utilized for serum-based testing of other malignancies. Proposed approach has a high potential to be used for serum marker identification in other types of cancers and presented here data could be a source for the development of more sensitive and specific diagnostic panel for early gastric cancer detection and patient post-treatment monitoring.

K. E. Medvedev and A. V. Savelyeva—These authors contributed equally to this work.

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Author information

Authors and Affiliations

  1. Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, TX, USA

    Kirill E. Medvedev & Nick V. Grishin

  2. Department of Urology, University of Texas Southwestern Medical Center, Dallas, TX, USA

    Anna V. Savelyeva & Aditya Bagrodia

  3. Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, TX, USA

    Nick V. Grishin

  4. Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, Dallas, TX, USA

    Nick V. Grishin

Authors
  1. Kirill E. Medvedev
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  2. Anna V. Savelyeva
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  3. Aditya Bagrodia
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  4. Nick V. Grishin
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Corresponding author

Correspondence to Kirill E. Medvedev .

Editor information

Editors and Affiliations

  1. University of Nevada Reno, Reno, NV, USA

    George Bebis

  2. George Washington University, Ashburn, VA, USA

    Max Alekseyev

  3. University of California, Riverside, Riverside, CA, USA

    Heyrim Cho

  4. The College of New Jersey, Ewing, NJ, USA

    Jana Gevertz

  5. IBM Research - Zurich, Rüschlikon, Switzerland

    Maria Rodriguez Martinez

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Medvedev, K.E., Savelyeva, A.V., Bagrodia, A., Grishin, N.V. (2020). The Potential of Single Cell RNA-Sequencing Data for the Prediction of Gastric Cancer Serum Biomarkers. In: Bebis, G., Alekseyev, M., Cho, H., Gevertz, J., Rodriguez Martinez, M. (eds) Mathematical and Computational Oncology. ISMCO 2020. Lecture Notes in Computer Science(), vol 12508. Springer, Cham. https://doi.org/10.1007/978-3-030-64511-3_8

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  • DOI: https://doi.org/10.1007/978-3-030-64511-3_8

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-64510-6

  • Online ISBN: 978-3-030-64511-3

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