The goal of this project was to create a gene database for ''Burkholderia cenocepacia'' and to use this database for the purpose of conducting an analysis on microarray data generated by Van Acker et al (2013). This data measured the transcriptomic effects of tobramycin (an antibiotic) on the bacterium. The database was constructed using data from [http://www.burkholderia.com/ Burkholderia Genome Database], [http://www.uniprot.org/ UniProt] and [http://geneontology.org/ Gene Ontology Consortium]. The microarray data was taken from the paper, [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3596321/ Biofilm-Grown ''Burkholderia cepacia'' Complex Cells Survive Antibiotic Treatment by Avoiding Production of Reactive Oxygen Species]. Once the gene database (found [[Media:Bc-Std_GEN_20151204.zip|here]]) was created, the processed microarray data (found [[media:Raw_compiled_data_FINAL_KWVP20151507.xlsx|here]]) were fed through a software called GenMAPP, which analyzed the data and returned significantly changed cellular processes (gene ontology terms - see [[Kevin Wyllie Week 15|week 15 journal]] for files and results). We then compared the biological implications of our analysis to that of Van Acker et al (2013).
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The goal of this project was to create a gene database for ''Burkholderia cenocepacia'' and to use this database for the purpose of conducting an analysis on microarray data generated by Van Acker et al (2013). This data measured the transcriptomic effects of tobramycin (an antibiotic) on the bacterium. The database was constructed using data from [http://www.burkholderia.com/ Burkholderia Genome Database], [http://www.uniprot.org/ UniProt] and [http://geneontology.org/ Gene Ontology Consortium]. The microarray data was taken from the paper, [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3596321/ Biofilm-Grown ''Burkholderia cepacia'' Complex Cells Survive Antibiotic Treatment by Avoiding Production of Reactive Oxygen Species]. Once the gene database (found [[Media:Bc-Std_GEN_20151204.zip|here]]) was created, the processed microarray data (found [[media:Raw_compiled_data_FINAL_KWVP20151507.xlsx|here]]) were fed through a software called GenMAPP, which analyzed the data and returned significantly changed cellular processes (gene ontology terms - see above for files and results). We then compared the biological implications of our analysis to that of Van Acker et al (2013).