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Updated: Aug 29, 2025

Primer-Free Aptamer Selection Using A Random DNA Library

Primer-Free Aptamer Selection Using A Random DNA Library

Published on: July 26, 2010

DNA Conjugates as Tool Compounds for DEL Selections.

David I Israel¹

¹HitGen Inc., Chengdu, Sichuan, China. david.israel@hitgen.com.

Methods in Molecular Biology (Clifton, N.J.)

|September 9, 2022

Summary

This summary is machine-generated.

DNA-conjugated small molecules aid in discovering novel compounds that bind target proteins. These tool compounds validate targets, optimize selection methods, and serve as positive controls in DNA-encoded library (DEL) selections.

Keywords:

Binding assay DEL selections DNA conjugate Positive control Tool compound qPCR

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Area of Science:

Chemical biology
Drug discovery
Molecular biology

Background:

DNA-encoded library (DEL) selections identify novel small molecules binding to target proteins.
Validated ligands are crucial for optimizing DEL selection methods and validating targets.
Tool compounds are needed to serve as positive controls in DEL experiments.

Purpose of the Study:

To discuss the design, synthesis, and application of DNA conjugate tool compounds for DEL selections.
To provide an example of a DNA conjugate targeting the CCR5 receptor.
To demonstrate the utility of these conjugates in optimizing selection conditions and as positive controls.

Main Methods:

Design and synthesis of DNA conjugates using known small molecule or peptide ligands.
Utilizing DNA conjugates in preselection binding assays to validate target proteins.
Employing DNA conjugates as spike-in positive controls in DEL selection experiments.

Main Results:

Demonstrated the successful design and synthesis of a DNA conjugate for the CCR5 receptor.
Showcased the use of this conjugate to optimize DEL selection conditions.
Validated the conjugate's effectiveness as a spike-in positive control in a DEL selection.

Conclusions:

DNA-conjugated tool compounds are valuable for validating targets and optimizing DEL selection processes.
These methods are versatile, applicable to both soluble and cell-surface protein targets.
The described approach supports the discovery of novel binders across various compound types.