Handbook of Analysis of Oligonucleotides and Related Products  book cover
1st Edition

Handbook of Analysis of Oligonucleotides and Related Products

ISBN 9781138198456
Published October 19, 2016 by CRC Press
511 Pages 266 B/W Illustrations

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Book Description

Oligonucleotides represent one of the most significant pharmaceutical breakthroughs in recent years, showing great promise as diagnostic and therapeutic agents for malignant tumors, cardiovascular disease, diabetes, viral infections, and many other degenerative disorders. The Handbook of Analysis of Oligonucleotides and Related Products is an essential reference manual on the practical application of modern and emerging analytical techniques for the analysis of this unique class of compounds. A strong collaboration among thirty leading analytical scientists from around the world, the book provides readers with a comprehensive overview of the most commonly used analytical techniques and their advantages and limitations in assuring the identity, purity, quality, and strength of an oligonucleotide intended for therapeutic use.

Topics discussed include:

  • Strategies for enzymatic or chemical degradation of chemically modified oligonucleotides toward mass spectrometric sequencing
  • Purity analysis by chromatographic or electrophoretic methods, including RP-HPLC, AX-HPLC, HILIC, SEC, and CGE
  • Characterization of sequence-related impurities in oligonucleotides by mass spectrometry and chromatography
  • Structure elucidation by spectroscopic methods (IR, NMR, MS) as well as base composition and thermal melt analysis (Tm)
  • Approaches for the accurate determination of molar extinction coefficient of oligonucleotides
  • Accurate determination of assay values
  • Assessment of the overall quality of oligonucleotides, including microbial analysis and determination of residual solvents and heavy metals
  • Strategies for determining the chemical stability of oligonucleotides
  • The use of hybridization techniques for supporting pharmacokinetics and drug metabolism studies in preclinical and clinical development
  • Guidance for the presentation of relevant analytical information towards meeting current regulatory expectations for oligonucleotide therapeutics

This resource provides a practical guide for applying state-of-the-art analytical techniques in research, development, and manufacturing settings.

Table of Contents

Purity Analysis and Impurities Determination by Reversed-Phase High- Performance Liquid Chromatography; H. Cramer, K. J. Finn, and E. Herzberg

Purity Analysis and Impurities Determination by AEX-HPLC; J. R. Thayer, V. Murugaiah, and Y. Wu

Purity Analysis and Molecular Weight Determination by Size Exclusion HPLC Analysis; M.F. Chan and I. Roymoulik

Analysis of Oligonucleotides by Liquid Chromatography—Mass Spectrometry; S. Pourshahian and S. M McCarthy

Sequence Determination and Confirmation by MS/M S and MALDI-TOF; Z. Timar

Tm Analysis of Oligonucleotides; H. Zhu and G. S. Srivatsa

Purity and Content Analysis of Oligonucleotides by Capillary Gel Electrophoresis; J.Carmody and B. Noll

Bioanalysis of Therapeutic Oligonucleotides Using Hybridization-Based Immunoassay Techniques; H. Legakis and S. Carriero

Oligonucleotide Assay and Potency; D. P. Michaud

Microbial Analysis: Endotoxin Testing; B. J. Markley

Analysis of Residual Solvents by Head Space Gas Chromatography; S. Countryman and J. V. Bonilla

Determination of Extinction Coefficient; V. Murugaiah

Structural Determination by NMR; M. L. DeRider, D. Brooks, and G. Burt

Infrared Analysis of Oligonucleotides; J. V. Bonilla

Stability Indicating Methods for Oligonucleotide Products; V. Murugaiah

Analysis by Hydrophilic Interaction Chromatography; R. N. Easter and P. A. Limbach

Determination of Base Composition; H. Aygün

Analysis of Metals in Oligonucleotides; M. P. Murphy

Regulatory Considerations for the Development of Oligonucleotide Therapeutics; G. S. Srivatsa

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Dr. Jose V. Bonilla’s career has been dedicated to the introduction and implementation of cutting-edge analytical technologies such as LC-MS, high-speed gas chromatography, high-speed GPC, online GC, online HPLC, and online near-IR. He has extensive experience in the management of industrial and pharmaceutical analytical laboratories in compliance with regulatory requirements and is the author and coauthor of several peer-reviewed publications.

Dr. G. Susan Srivatsa has more than 20 years of experience in the development of small molecules, proteins, peptides, and oligonucleotides as therapeutics. She has contributed to the successful development of more than 35 DNA and RNA oligonucleotide drug candidates through various stages of clinical development and has published widely in the area of oligonucleotide analysis in peer-reviewed journals.


This is a unique resource for guiding the analysis of oligonucleotide-based drug products. No other single source provides such a comprehensive overview of the necessary analytical techniques that assess the qualitative characteristics of oligonucleotides intended for pharmaceutical use.
—Rachel R Chennault, Ph.D.(American College of Clinical Pharmacy), in Doody's Notes