AI Article Synopsis
- Cross-species hybridization (CSH) involves analyzing RNA from one species against a DNA microarray from another, helping researchers understand species diversity, but requires careful data filtration for accuracy.
- A new method was developed that filters CSH data based on specific characteristics of the microarray spots, known as spot characteristics (SCs), particularly those influenced by the similarity of probe and target sequences.
- This new filtration approach enhanced data clustering in experiments, indicating its potential as a valuable tool for studying species without available genomic information.
Article Abstract
Cross-species hybridization (CSH), i.e., the hybridization of a (target) species RNA to a DNA microarray that represents another (reference) species, is often used to study species diversity. However, filtration of CSH data has to be applied to extract valid information. We present a novel approach to filtering the CSH data, which utilizes spot characteristics (SCs) of image-quantification data from scanned spotted cDNA microarrays. Five SCs that were affected by sequence similarity between probe and target sequences were identified (designated as BS-SCs). Filtration by all five BS-SC thresholds demonstrated improved clustering for two of the three examined experiments, suggesting that BS-SCs may serve for filtration of data obtained by CSH, to improve the validity of the results. This CSH data-filtration approach could become a promising tool for studying a variety of species, especially when no genomic information is available for the target species.
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| http://dx.doi.org/10.1016/j.ygeno.2007.06.008 | DOI Listing |
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