Transcription factors (TFs) are sequence-specific DNA-binding proteins that regulate gene expression in all organisms, and they account for 4-10% of all protein-coding genes in all species. For example, the model plant Arabidopsis has 2492 genes encoding TFs, accounting for more than 9% of its total protein-coding genes.
ChIP-seq is the main method to perform in vivo detection of TFBS, and the cumbersome steps and material requirements have blocked many scientific processes. The DNA Affinity Purification Sequencing (DAP-seq) method has successfully transferred in vivo binding experiments to in vitro, solved the problem of ChIP antibody preparation, and greatly improved the efficiency of DNA Binding Site discovery. DAP-seq is not only able to find TFBS with ultra-high throughput, but also provides insight into the biological properties and binding site structures of numerous TFs, showing great value in cis-trans and epistatic studies of any organism.
Creative Proteomics offers cutting-edge DAP-Seq technology, which is a powerful tool for studying protein-DNA interactions. With our expertise and advanced instrumentation, we provide reliable and accurate results that enable researchers to gain a deeper understanding of gene regulation and other important biological processes.
DAP-seq expresses TF with tags by in vitro protein expression technology, binds to genomic DNA libraries in vitro, and then isolates the DNA bound to the TF, and then uses high-throughput sequencing to find the binding site of the TF.
a) Obtain genomic DNA, interrupt and ligate sequencing junction
b) Expression of fusion protein with ligand (target TF)
c) The fusion protein is attached to antibody direct-labeled magnetic beads
d) Genomic DNA is incubated with the target TF fusion protein, and the DNA fragment bound to the target TF is enriched using the magnet and sequenced
DAP-seq protocol overview (Bartlett et al., 2017)
You can refer to the following information to select the appropriate research method for your project:
Advantages of DAP-seq service:
Limitations of DAP-seq service:
|Protein and DNA binding in||in vitro||in vivo|
|Requires specific antibodies||No||Yes|
|Suitable for non-model species||Yes||No|
|Suitable for large-scale transcription factor studies||Yes||No|
Creative Proteomics has accumulated a wealth of experience in DNA-protein interaction research. Our team of technical professionals also offers other techniques for DNA-protein interaction analysis, including ChIP-seq, DNA pull down, DNase l footprinting, etc. Contact us to learn more.