Title |
Comparison of three microarray probe annotation pipelines: differences in strategies and their effect on downstream analysis
|
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Published in |
BMC Proceedings, July 2009
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DOI | 10.1186/1753-6561-3-s4-s1 |
Pubmed ID | |
Authors |
Pieter BT Neerincx, Pierrot Casel, Dennis Prickett, Haisheng Nie, Michael Watson, Jack AM Leunissen, Martien AM Groenen, Christophe Klopp |
Abstract |
Reliable annotation linking oligonucleotide probes to target genes is essential for functional biological analysis of microarray experiments. We used the IMAD, OligoRAP and sigReannot pipelines to update the annotation for the ARK-Genomics Chicken 20 K array as part of a joined EADGENE/SABRE workshop. In this manuscript we compare their annotation strategies and results. Furthermore, we analyse the effect of differences in updated annotation on functional analysis for an experiment involving Eimeria infected chickens and finally we propose guidelines for optimal annotation strategies. |
Mendeley readers
Geographical breakdown
Country | Count | As % |
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Unknown | 15 | 100% |
Demographic breakdown
Readers by professional status | Count | As % |
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Student > Ph. D. Student | 5 | 33% |
Researcher | 4 | 27% |
Professor > Associate Professor | 2 | 13% |
Student > Doctoral Student | 1 | 7% |
Professor | 1 | 7% |
Other | 0 | 0% |
Unknown | 2 | 13% |
Readers by discipline | Count | As % |
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Agricultural and Biological Sciences | 9 | 60% |
Biochemistry, Genetics and Molecular Biology | 1 | 7% |
Computer Science | 1 | 7% |
Medicine and Dentistry | 1 | 7% |
Unknown | 3 | 20% |