ArticleProceedings of the National Academy of Sciences of the United States of America2007
In vitro analysis of DNA-protein interactions by proximity ligation.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Thermofluorimetric Analysis (TFA) using Probes with Flexible Spacers: Application to Direct Antibody Sensing and to Antibody-Oligonucleotide (AbO) Conjugate Valency Monitoring.Analytical chemistry · 2023Article
- Network Pharmacology Approach for Medicinal Plants: Review and Assessment.Pharmaceuticals (Basel, Switzerland) · 2022Review
- Characterization of the T4 gp32-ssDNA complex by native, cross-linking, and ultraviolet photodissociation mass spectrometry.Chemical science · 2021Article
- Accurate detection of Newcastle disease virus using proximity-dependent DNA aptamer ligation assays.FEBS open bio · 2021Article
- Proximity ligation assay: an ultrasensitive method for protein quantification and its applications in pathogen detection.Applied microbiology and biotechnology · 2021Review
- I-Block: a simple Escherichia coli-based assay for studying sequence-specific DNA binding of proteins.Nucleic acids research · 2020Article
- DNA methylation at an enhancer of the three prime repair exonuclease 2 gene (TREX2) is linked to gene expression and survival in laryngeal cancer.Clinical epigenetics · 2019Article
- A DNA-Based Assay for Digoxin Detection.Biosensors · 2018Article
- Article
- Photoaffinity labeling of transcription factors by DNA-templated crosslinking.Chemical science · 2015Article
- Rolling circle replication requires single-stranded DNA binding protein to avoid termination and production of double-stranded DNA.Nucleic acids research · 2014Article
- Detection of histone modifications at specific gene loci in single cells in histological sections.Nature methods · 2013Article
- DNA-protein interactions: methods for detection and analysis.Molecular and cellular biochemistry · 2012Review
- Profiling cellular protein complexes by proximity ligation with dual tag microarray readout.PloS one · 2012Article
- Multiple recognition assay reveals prostasomes as promising plasma biomarkers for prostate cancer.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- Multiplexed homogeneous proximity ligation assays for high-throughput protein biomarker research in serological material.Molecular & cellular proteomics : MCP · 2011Article
- Article
- Bayesian analysis of high-throughput quantitative measurement of protein-DNA interactions.PloS one · 2011Article
- Sensitive plasma protein analysis by microparticle-based proximity ligation assays.Molecular & cellular proteomics : MCP · 2010Article
- Interferon regulatory factor 5 (IRF5) gene variants are associated with multiple sclerosis in three distinct populations.Journal of medical genetics · 2008Article
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Protein-binding DNA sequence elements encode a variety of regulated functions of genomes. Information about such elements is currently in a state of rapid growth, but improved methods are required to characterize the sequence specificity of DNA-binding proteins. We have established an in vitro method for specific and sensitive solution-phase analysis of interactions between proteins and nucleic acids in nuclear extracts, based on the proximity ligation assay. The reagent consumption is very low, and the excellent sensitivity of the assay enables analysis of as few as 1-10 cells. We show that our results are highly reproducible, quantitative, and in good agreement with both EMSA and predictions obtained by using a motif finding software. This assay can be a valuable tool to characterize in-depth the sequence specificity of DNA-binding proteins and to evaluate effects of polymorphisms in known transcription factor binding sites.
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