Author
Listed:
- Roxana Cojocneanu Petric
- Cornelia Braicu
- Cristian Bassi
- Laura Pop
- Ionelia Taranu
- Nicolae Dragos
- Dan Dumitrascu
- Massimo Negrini
- Ioana Berindan-Neagoe
Abstract
The use of animal models has facilitated numerous scientific developments, especially when employing “omics” technologies to study the effects of various environmental factors on humans. Our study presents a new bioinformatics pipeline suitable when the generated microarray data from animal models does not contain the necessary human gene name annotation. We conducted single color gene expression microarray on duodenum and spleen tissue obtained from pigs which have been exposed to zearalenone and Escherichia coli contamination, either alone or combined. By performing a combination of file format modifications and data alignments using various online tools as well as a command line environment, we performed the pig to human gene name extrapolation with an average yield of 58.34%, compared to 3.64% when applying more simple methods. In conclusion, while online data analysis portals on their own are of great importance in data management and assessment, our new pipeline provided a more effective approach for a situation which can be frequently encountered by researchers in the “omics” era.
Suggested Citation
Roxana Cojocneanu Petric & Cornelia Braicu & Cristian Bassi & Laura Pop & Ionelia Taranu & Nicolae Dragos & Dan Dumitrascu & Massimo Negrini & Ioana Berindan-Neagoe, 2015.
"Interspecies Gene Name Extrapolation—A New Approach,"
PLOS ONE, Public Library of Science, vol. 10(9), pages 1-7, September.
Handle:
RePEc:plo:pone00:0138751
DOI: 10.1371/journal.pone.0138751
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