ArticleNucleic acids research2008
A competitive hybridization model predicts probe signal intensity on high density DNA microarrays.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 21 citations in OpenAlex.
- Accurate prediction of oligonucleotide probe hybridization efficiency via a transformer-based model.BMC genomics · 2026Article
- CyanoStrainChip: A Novel DNA Microarray Tool for High-Throughput Detection of Environmental Cyanobacteria at the Strain Level.Environmental science & technology · 2024Article
- A comprehensive hybridization model allows whole HERV transcriptome profiling using high density microarray.BMC genomics · 2017Article
- Single-stranded DNA catalyzes hybridization of PCR-products to microarray capture probes.PloS one · 2014Article
- A revised design for microarray experiments to account for experimental noise and uncertainty of probe response.PloS one · 2014Article
- Physico-chemical foundations underpinning microarray and next-generation sequencing experiments.Nucleic acids research · 2013Review
- Thermostable DNA immobilization and temperature effects on surface hybridization.Langmuir : the ACS journal of surfaces and colloids · 2012Article
- Modeling formamide denaturation of probe-target hybrids for improved microarray probe design in microbial diagnostics.PloS one · 2012Article
- Was the Scanner Calibration Slide used for its intended purpose?BMC bioinformatics · 2011Article
- Detection of NASBA amplified bacterial tmRNA molecules on SLICSel designed microarray probes.BMC biotechnology · 2011Article
- Accurate estimates of microarray target concentration from a simple sequence-independent Langmuir model.PloS one · 2010Article
- Application of equilibrium models of solution hybridization to microarray design and analysis.PloS one · 2010Article
- Beyond Affymetrix arrays: expanding the set of known hybridization isotherms and observing pre-wash signal intensities.Nucleic acids research · 2010Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A central, unresolved problem of DNA microarray technology is the interpretation of different signal intensities from multiple probes targeting the same transcript. We propose a competitive hybridization model for DNA microarray hybridization. Our model uses a probe-specific dissociation constant that is computed with current nearest neighbor model and existing parameters, and only four global parameters that are fitted to Affymetrix Latin Square data. This model can successfully predict signal intensities of individual probes, therefore makes it possible to quantify the absolute concentration of targets. Our results offer critical insights into the design and data interpretation of DNA microarrays.
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Registered trials
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