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Updated: Jun 21, 2026
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High Sensitivity Measurement of Transcription Factor-DNA Binding Affinities by Competitive Titration Using Fluorescence Microscopy
Published on: February 7, 2019
Serial analysis of binding elements for transcription factors
1Department of Biological Sciences, Mississippi State University, Mississippi State, MS, USA.
Methods in Molecular Biology (Clifton, N.J.)
|July 10, 2009
Summary
We developed Serial Analysis of Binding Elements (SABE) to map transcription factor binding sites genome-wide. This method aids in understanding gene regulation in human development and diseases like cancer.
Area of Science:
- Genomics
- Molecular Biology
- Epigenetics
Background:
- Identifying transcription factor binding sites (TFBS) is essential for understanding gene regulatory networks.
- Dysregulation of these networks is implicated in human development and diseases, including cancer.
Purpose of the Study:
- To develop a novel, unbiased method for globally identifying TFBS in mammalian genomes.
- To provide a robust tool for elucidating gene regulatory mechanisms.
Main Methods:
- Developed Serial Analysis of Binding Elements (SABE), a method combining Chromatin Immunoprecipitation (ChIP) with subtractive hybridization and SAGE-type sequencing.
- Utilized antibodies to target specific DNA-binding transcription factors and enrich bound DNA fragments.
- Analyzed enriched DNA through sequence tag generation.
Main Results:
- SABE enables unbiased, genome-wide identification of TFBS in human and other mammalian cells.
- The method circumvents the need for microarrays, offering a distinct advantage.
- SABE effectively reduces intrinsic noise sequences common in ChIP samples.
Conclusions:
- SABE is a powerful and efficient method for mapping TFBS.
- This technique facilitates deeper understanding of gene regulation in normal and pathological conditions.
- SABE offers an improved strategy for TFBS identification compared to existing methods.
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