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Discovery of Biomarkers Using Aptamers Evolved in Cell-SELEX Method

  • Prabodhika MallikaratchyEmail author
  • Hasan Zumrut
  • Naznin Ara
Chapter

Abstract

The knowledge of biomarkers relevant to diseases has a significant impact on the diagnosis, the prognosis, and the fundamental understanding of the disease. In the context of biomarker discovery in cell-SELEX, the definition of a biomarker referred to a molecular entity overly expressed in an immortalized cell line in which the origin of this cell is a diseased patient. This chapter focuses on an extensive discussion on how biomarkers can be discovered using aptamers evolved from cell-SELEX technology, with a particular emphasis on the systematic steps needs to follow to discover a biomarker. A comparison is made underlining current challenges of existing “omic”-based technologies of biomarker discovery. The utility of chemical versatility of aptamers in transforming aptamers evolved from cell-SELEX as a proteomic tool is discussed. Feasibility of post-proteomic target validation studies employing variety of biochemical techniques is highlighted with selected examples. The significant progress of aptamer-aided biomarker discovery is emphasized with six examples of aptamer-based biomarker discovery leading to the identification of novel marker or already established biomarker molecules. Chapter concludes with a discussion on current challenges that hinders the success of the field of aptamer-based biomarker discovery, and a discussion with potential solutions that could accelerate the progress of the field.

Keywords

Aptamer-based biomarker discovery Cell-SELEX Proteomics Flow cytometry Chemical cross-linking Protein tyrosine kinase 7 (PTK-7) Immunoglobin heavy membrane (IGHM) Stress-induced phosphoprotein 1 (STIP1) Hemagglutinin (HA) Sialic acid-binding Ig-like lectin (Siglec-5) 

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Copyright information

© Springer-Verlag Berlin Heidelberg 2015

Authors and Affiliations

  • Prabodhika Mallikaratchy
    • 1
    Email author
  • Hasan Zumrut
    • 1
  • Naznin Ara
    • 1
  1. 1.Department of ChemistryLehman College-City University of New YorkBronxUSA

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