Protein-dna Binding Microarray
Protein-dna Binding Microarray - Related Videos
09:32
ampliPHOX Colorimetric Detection on a DNA Microarray for Influenza
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Cited by 4 •
2011
ampliPHOX colorimetric detection technology is presented as an inexpensive alternative to fluorescence detection for microarrays. Based on photopolymerization, ampliPHOX produces solid polymer spots visible to the naked eye in just a few minutes. Results are then imaged and automatically interpreted with a simple yet powerful software package.
08:51
Visualization of Surface-tethered Large DNA Molecules with a Fluorescent Protein DNA Binding Peptide
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Cited by 7 •
2016
We present an approach for visualizing fluorescent protein DNA binding peptide (FP-DBP)-stained large DNA molecules tethered on the polyethylene glycol (PEG) and avidin-coated glass surface and stretched with microfluidic shear flows.
07:05
Chromatin Immunoprecipitation to Identify Target Protein Binding Sites on Genomic DNA
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2025
In this video, we demonstrate the chromatin immunoprecipitation technique to identify protein binding sites on specific regions of the genomic DNA of oligodendrocyte precursor cells via the selective immunoprecipitation of protein-bound chromatin fragments. This method helps to study the interaction of several regulatory proteins, including transcription factors involved in gene regulation.
02:34
DNA Microarrays
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2021
Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
01:03
Single-Strand DNA Binding Proteins
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2023
For successful DNA replication, the unwinding of double-stranded DNA must be accompanied by stabilization and protection of the separated single strands of the DNA. This crucial task is performed by single-strand DNA-binding (SSB) proteins. They bind to the DNA in a sequence-independent manner, which means that the nitrogenous bases of the DNA need not be present in a specific order for binding of SSB proteins to it. The binding of SSB proteins straightens single-stranded DNA (ssDNA) and makes...
FAQs
Sequence variants create a controlled comparison among DNA targets that differ in nucleotide composition. When the purified protein produces stronger or weaker signals across those variants, the pattern indicates which sequences it preferentially recognizes. Researchers can use these relative binding signals to identify recognition motifs and describe the protein’s sequence-selective interaction with DNA.
Binding models summarize the sequence preferences observed across the array rather than treating each DNA spot as an isolated result. They help represent how a protein recognizes related sequences and provide a framework for comparing binding behavior among targets. Such models support interpretation of transcription-factor specificity and analysis of regulatory DNA regions.
A mutant protein can be examined against the same collection of defined oligonucleotides used for the original protein. Comparing the resulting signal patterns shows whether the mutation changes recognition of particular sequences or alters broader binding preferences. This creates a biochemical way to connect protein sequence changes with differences in DNA recognition.
The assay requires a surface carrying many defined oligonucleotides and a purified DNA-binding protein for exposure to those sequences. After interaction occurs, fluorescence or another detection signal identifies bound targets and indicates relative binding preferences. The resulting array-wide pattern supplies the measurements needed for motif discovery and quantitative comparison.
The method can reveal which DNA sequences a regulatory protein recognizes, providing information relevant to promoter regions and their potential protein interactions. By comparing sequence variants, researchers can assess how changes in DNA composition affect binding. These biochemical measurements help connect promoter sequence features with mechanisms of gene regulation.
Binding profiles provide sequence-level evidence for how regulatory proteins may contribute to gene-control systems. When combined with recognition motifs and binding models, the data can support analysis of regulatory network organization and protein-specific DNA preferences. The same measurements also help relate biochemical binding behavior to broader studies of transcriptional regulation.