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2011 IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences
Cluster analysis of genome-wide expression differences in disease-unaffected ileal mucosa in inflammatory bowel diseases
Orlando, FL, USA
February 03-February 05
ISBN: 978-1-61284-851-8
| ASCII Text | x | ||
| "Cluster analysis of genome-wide expression differences in disease-unaffected ileal mucosa in inflammatory bowel diseases," Computational Advances in Bio and Medical Sciences, IEEE International Conference on, pp. 220-225, 2011 IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011. | |||
| BibTex | x | ||
| @article{ 10.1109/ICCABS.2011.5729884, author = {}, title = {Cluster analysis of genome-wide expression differences in disease-unaffected ileal mucosa in inflammatory bowel diseases}, journal ={Computational Advances in Bio and Medical Sciences, IEEE International Conference on}, volume = {0}, year = {2011}, isbn = {978-1-61284-851-8}, pages = {220-225}, doi = {http://doi.ieeecomputersociety.org/10.1109/ICCABS.2011.5729884}, publisher = {IEEE Computer Society}, address = {Los Alamitos, CA, USA}, } | |||
| RefWorks Procite/RefMan/Endnote | x | ||
| TY - CONF JO - Computational Advances in Bio and Medical Sciences, IEEE International Conference on TI - Cluster analysis of genome-wide expression differences in disease-unaffected ileal mucosa in inflammatory bowel diseases SN - 978-1-61284-851-8 SP220 EP225 PY - 2011 KW - proteins KW - cellular biophysics KW - diseases KW - DNA KW - genetics KW - genomics KW - medical computing KW - molecular biophysics KW - molecular configurations KW - principal component analysis KW - gene expression profiles KW - cluster analysis KW - genome-wide expression KW - disease-unaffected ileal mucosa KW - inflammatory bowel diseases KW - whole human genome expression profiling KW - RNA KW - ulcerative colitis KW - microarray significance analysis KW - principal component analysis KW - PCA KW - gene-probe clusters KW - pathogenic changes KW - ingenuity pathway analysis KW - Paneth cell antimicrobial peptides KW - organized lymphoid structures KW - nuclear receptor signaling KW - xenobiotic metabolism KW - molecular phylogenetic 16S rRNA sequence analysis KW - DNA KW - Diseases KW - Biochemistry KW - Probes KW - Surgery KW - Input variables KW - Genomics KW - 16S rRNA sequence analysis KW - Crohn's disease KW - ulcerative colitis KW - microarray KW - dimension reduction KW - cluster analysis VL - 0 JA - Computational Advances in Bio and Medical Sciences, IEEE International Conference on ER - | |||
Whole human genome (Agilent) expression profiling was conducted on disease-unaffected ileal RNA collected from the proximal margin of resected ileum from 47 ileal Crohn's disease (CD), 27 ulcerative colitis (UC) and 25 control patients without inflammatory bowel diseases (IBD). Cluster analysis combined with significance analysis of microarrays (SAM) and principal component analysis (PCA) and was used to reduce the data dimension to identify gene-probe clusters associated with early pathogenic changes in ileal CD and UC. Ingenuity Pathway Analysis (IPA) was used to identify the biological pathways associated with each cluster. We reduced the dimensions of the 26,765 gene probe set to 43 gene-probe clusters. Most of these clusters could be labeled as related to different biological pathways, such as Paneth cell antimicrobial peptides, the formation of organized lymphoid structures, or nuclear receptor signaling and xenobiotic metabolism. Molecular phylogenetic 16S rRNA sequence analysis was completed on 83 DNA samples from the same samples used to generate the gene expression profiles. We conducted an exploratory study to determine if the first principle component (PC1) of these clusters could be linked to specific phyla/subphyla taxa.
Index Terms:
proteins,cellular biophysics,diseases,DNA,genetics,genomics,medical computing,molecular biophysics,molecular configurations,principal component analysis,gene expression profiles,cluster analysis,genome-wide expression,disease-unaffected ileal mucosa,inflammatory bowel diseases,whole human genome expression profiling,RNA,ulcerative colitis,microarray significance analysis,principal component analysis,PCA,gene-probe clusters,pathogenic changes,ingenuity pathway analysis,Paneth cell antimicrobial peptides,organized lymphoid structures,nuclear receptor signaling,xenobiotic metabolism,molecular phylogenetic 16S rRNA sequence analysis,DNA,Diseases,Biochemistry,Probes,Surgery,Input variables,Genomics,16S rRNA sequence analysis,Crohn's disease,ulcerative colitis,microarray,dimension reduction,cluster analysis
Citation:
"Cluster analysis of genome-wide expression differences in disease-unaffected ileal mucosa in inflammatory bowel diseases," iccabs, pp.220-225, 2011 IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011
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