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Pharmaceuticals 2016, 9(4), 76; doi:10.3390/ph9040076

Applications of High-Throughput Sequencing for In Vitro Selection and Characterization of Aptamers

1
CEA, DSV, I²BM, Molecular Imaging Research Center (MIRCen), 18 route du panorama, 92260 Fontenay-aux-Roses, France
2
Neurodegenerative Diseases Laboratory, Centre National de la Recherche Scientifique (CNRS), Université Paris-Saclay, Université Paris-Sud, UMR 9199, 92260 Fontenay-aux-Roses, France
3
LFB Biotechnologies, 3 avenue des Tropiques, 91958 Courtaboeuf CEDEX, France
*
Author to whom correspondence should be addressed.
Academic Editor: Alfredo Berzal-Herranz
Received: 15 November 2016 / Revised: 6 December 2016 / Accepted: 7 December 2016 / Published: 10 December 2016
(This article belongs to the Special Issue Aptamers: Biomedical Interest and Applications)
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Abstract

Aptamers are identified through an iterative process of evolutionary selection starting from a random pool containing billions of sequences. Simultaneously to the amplification of high-affinity candidates, the diversity in the pool is exponentially reduced after several rounds of in vitro selection. Until now, cloning and Sanger sequencing of about 100 sequences was usually used to identify the enriched candidates. However, High-Throughput Sequencing (HTS) is now extensively used to replace such low throughput sequencing approaches. Providing a deeper analysis of the library, HTS is expected to accelerate the identification of aptamers as well as to identify aptamers with higher affinity. It is also expected that it can provide important information on the binding site of the aptamers. Nevertheless, HTS requires handling a large amount of data that is only possible through the development of new in silico methods. Here, this review presents these different strategies that have been recently developed to improve the identification and characterization of aptamers using HTS. View Full-Text
Keywords: high-throughput sequencing; SELEX; aptamers; evolution; fitness landscape high-throughput sequencing; SELEX; aptamers; evolution; fitness landscape
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Nguyen Quang, N.; Perret, G.; Ducongé, F. Applications of High-Throughput Sequencing for In Vitro Selection and Characterization of Aptamers. Pharmaceuticals 2016, 9, 76.

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