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Related Concept Videos

Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
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RNA-seq03:21

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
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DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
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Related Experiment Video

Updated: May 25, 2026

Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins
11:34

Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins

Published on: August 9, 2019

Probing the SELEX process with next-generation sequencing.

Tatjana Schütze1, Barbara Wilhelm, Nicole Greiner

  • 1Department of Vertebrate Genomics, Max Planck Institute for Molecular Genetics, Berlin, Germany.

Plos One
|January 14, 2012
PubMed
Summary
This summary is machine-generated.

Next-generation sequencing reveals that high-affinity aptamers are enriched early in the SELEX process. This finding enables a streamlined selection scheme, reducing time and potential biases for aptamer discovery.

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Area of Science:

  • Molecular Biology
  • Biotechnology
  • Genomics

Background:

  • Systematic Evolution of Ligands by Exponential Enrichment (SELEX) is an iterative process for aptamer discovery.
  • Understanding binder enrichment dynamics during SELEX has been limited.
  • Next-generation sequencing (NGS) provides a powerful tool to analyze population dynamics during SELEX.

Purpose of the Study:

  • To investigate the population dynamics during SELEX using NGS.
  • To compare NGS with conventional cloning and Sanger sequencing for aptamer selection.
  • To propose an optimized SELEX strategy based on observed enrichment patterns.

Main Methods:

  • A semi-automated SELEX procedure was applied to the target streptavidin.
  • A synthetic DNA oligonucleotide library was used for SELEX.
  • Barcoded pools from all selection rounds were sequenced in parallel using NGS.

Main Results:

  • High-affinity aptamers were identified through copy number enrichment in early SELEX rounds.
  • NGS analysis provided detailed insights into population dynamics.
  • Comparison with Sanger sequencing validated the NGS approach.

Conclusions:

  • Aptamer enrichment occurs rapidly, often within the initial selection rounds.
  • A revised SELEX scheme can reduce the number of iterative rounds.
  • The proposed scheme minimizes time, PCR bias, and artifacts in aptamer selection.