AI Article Synopsis
- Expression microarrays, primarily based on oligo-nucleotide probes, are key tools for studying transcriptomes, but their probe design typically remains unchanged for years.
- As scientific knowledge about genomes and transcriptomes evolves, it's vital to re-annotate these probes to provide researchers with current information.
- SigReannot-mart is a dynamic query environment that offers updated annotations for oligo sets, enabling users to extract data, compare probe sets based on various criteria, and create new probe sets for experiments.
Article Abstract
Expression microarrays are commonly used to study transcriptomes. Most of the arrays are now based on oligo-nucleotide probes. Probe design being a tedious task, it often takes place once at the beginning of the project. The oligo set is then used for several years. During this time period, the knowledge gathered by the community on the genome and the transcriptome increases and gets more precise. Therefore re-annotating the set is essential to supply the biologists with up-to-date annotations. SigReannot-mart is a query environment populated with regularly updated annotations for different oligo sets. It stores the results of the SigReannot pipeline that has mainly been used on farm and aquaculture species. It permits easy extraction in different formats using filters. It is used to compare probe sets on different criteria, to choose the set for a given experiment to mix probe sets in order to create a new one.
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Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3263592 | PMC |
| http://dx.doi.org/10.1093/database/bar025 | DOI Listing |
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