title: Interspecies Gene Name Extrapolation--A New Approach.
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.
authors.affiliation: Department of Biology, Babes Bolyai University, Cluj-Napoca, Romania; Research Center for Functional Genomics, Biomedicine and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania.
authors.forename: Roxana Cojocneanu
authors.initials: RC
authors.lastname: Petric
authors.affiliation: Research Center for Functional Genomics, Biomedicine and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania; Department of Functional Genomics and Experimental Pathology, The Oncology Institute "Prof. Dr. Ion Chiricuta", Cluj-Napoca, Romania.
authors.forename: Cornelia
authors.initials: C
authors.lastname: Braicu
authors.affiliation: Department of Morphology, Surgery and Experimental Medicine, Ferrara University, Ferrara, Italy.
authors.forename: Cristian
authors.initials: C
authors.lastname: Bassi
authors.affiliation: Research Center for Functional Genomics, Biomedicine and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania.
authors.forename: Laura
authors.initials: L
authors.lastname: Pop
authors.affiliation: National Institute of Research and Development for Biology and Animal Nutrition, Balotesti, Romania.
authors.forename: Ionelia
authors.initials: I
authors.lastname: Taranu
authors.affiliation: Taxonomy and Ecology Department, Institute of Biological Research, Cluj-Napoca, Romania.
authors.forename: Nicolae
authors.initials: N
authors.lastname: Dragos
authors.affiliation: 2nd Department of Internal Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania.
authors.forename: Dan
authors.initials: D
authors.lastname: Dumitrascu
authors.affiliation: Department of Morphology, Surgery and Experimental Medicine, Ferrara University, Ferrara, Italy; Laboratory for Technologies of Advanced Therapies (LTTA), Ferrara University, Ferrara, Italy.
authors.forename: Massimo
authors.initials: M
authors.lastname: Negrini
authors.affiliation: Research Center for Functional Genomics, Biomedicine and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania; Department of Experimental Therapeutics, MD Anderson Cancer Center, Houston, Texas, United States of America; Department of Functional Genomics and Experimental Pathology, The Oncology Institute "Prof. Dr. Ion Chiricuta", Cluj-Napoca, Romania; Department of Immunology, Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania.
authors.forename: Ioana
authors.initials: I
authors.lastname: Berindan-Neagoe
mesh_terms: D000818:Animals; D019295:Computational Biology / Q000379:methods; D005796:Genes; D006801:Humans; D020407:Internet; D058977:Molecular Sequence Annotation / Q000379:methods; D012984:Software; D009626:Terminology as Topic