ArticleProceedings of the National Academy of Sciences of the United States of America2006
Linking DNA-binding proteins to their recognition sequences by using protein microarrays.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed, 72 citations in OpenAlex.
- TransBind allows precise detection of DNA-binding proteins and residues using language models and deep learning.Communications biology · 2025Article
- Protein target search diffusion-association/dissociation free energy landscape around DNA binding site with flanking sequences.Biophysical journal · 2025Article
- Article
- I-Block: a simple Escherichia coli-based assay for studying sequence-specific DNA binding of proteins.Nucleic acids research · 2020Article
- iProDNA-CapsNet: identifying protein-DNA binding residues using capsule neural networks.BMC bioinformatics · 2019Article
- A semi-synthetic regulon enables rapid growth of yeast on xylose.Nature communications · 2018Article
- DeeperBind: Enhancing Prediction of Sequence Specificities of DNA Binding Proteins.Proceedings. IEEE International Conference on Bioinformatics and Biomedicine · 2016Article
- Compartmentation of metabolites in regulating epigenome of cancer.Molecular medicine (Cambridge, Mass.) · 2016Article
- The Potentials and Pitfalls of Microarrays in Neglected Tropical Diseases: A Focus on Human Filarial Infections.Microarrays (Basel, Switzerland) · 2016Review
- Identification of bacterial factors involved in type 1 fimbria expression using an Escherichia coli K12 proteome chip.Molecular & cellular proteomics : MCP · 2014Article
- DNA motif elucidation using belief propagation.Nucleic acids research · 2013Article
- Overview of protein microarrays.Current protocols in protein science · 2013Review
- Applications of functional protein microarrays in basic and clinical research.Advances in genetics · 2012Review
- Identification of a DNA-binding site for the transcription factor Haa1, required for Saccharomyces cerevisiae response to acetic acid stress.Nucleic acids research · 2011Article
- Systematic characterization of protein-DNA interactions.Cellular and molecular life sciences : CMLS · 2011Review
- Characterization of protein-DNA interactions using protein microarrays.Cold Spring Harbor protocols · 2011Article
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- Article
- Quadruple 9-mer-based protein binding microarray with DsRed fusion protein.BMC molecular biology · 2009Article
- Protein microarrays: high-throughput tools for proteomics.Expert review of proteomics · 2009Review
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 1 country.
Funding
Abstract
Analyses of whole-genome sequences and experimental data sets have revealed a large number of DNA sequence motifs that are conserved in many species and may be functional. However, methods of sufficient scale to explore the roles of these elements are lacking. We describe the use of protein arrays to identify proteins that bind to DNA sequences of interest. A microarray of 282 known and potential yeast transcription factors was produced and probed with oligonucleotides of evolutionarily conserved sequences that are potentially functional. Transcription factors that bound to specific DNA sequences were identified. One previously uncharacterized DNA-binding protein, Yjl103, was characterized in detail. We defined the binding site for this protein and identified a number of its target genes, many of which are involved in stress response and oxidative phosphorylation. Protein microarrays offer a high-throughput method for determining DNA-protein interactions.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.