Delineation and interpretation of gene networks towards their effect in cellular physiology- A reverse engineering approach for the identification of critical molecular players, through the use of ontologies

2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10

Volumn , Issue , 2010, Pages 6709-6712

  Moutselos, K ^a   Maglogiannis, I ^a   Chatziioannou, A ^b  

^a UNIVERSITY OF CENTRAL GREECE   (Greece)

^b INSTITUTE OF BIOLOGY   (Greece)

Author keywords

[No Author keywords available]

Indexed keywords

CELLULAR PATHWAY; CELLULAR PHYSIOLOGY; DATA SETS; DIFFERENTIAL EXPRESSIONS; DNA MICRO-ARRAY; GENE LISTS; GENE NETWORKS; GENE ONTOLOGY; LEWIS LUNG CARCINOMATA; META-ANALYSIS; MOLECULAR PROCESS; OBJECTIVE MEASURE; OIL TREATMENT; PERFORMANCE MEASURE; REVERSE ENGINEERS;

ALGORITHMS; DATA REDUCTION; ONTOLOGY; PHYSIOLOGY; REVERSE ENGINEERING;

GENE EXPRESSION;

ALGORITHM; ANIMAL; ARTICLE; BIOLOGY; DNA MICROARRAY; GENE REGULATORY NETWORK; GENETIC DATABASE; GENETICS; METHODOLOGY; MOUSE;

ALGORITHMS; ANIMALS; COMPUTATIONAL BIOLOGY; DATABASES, GENETIC; GENE REGULATORY NETWORKS; MICE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS;

EID: 78650810343     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/IEMBS.2010.5626249     Document Type: Conference Paper

References (17)

1. E. Schadt and P. Lum, "Reverse engineering gene networks to identify key drivers of complex disease phenotypes," Journal of Lipid Research, vol. 47, pp. 2601-2613, Dec 2006 2006.
2. A. L. Barabasi, "Scale-free networks: a decade and beyond," Science, vol. 325, pp. 412-3, Jul 24 2009.
3. M. Ashburner, et al., "Gene ontology: tool for the unification of biology. The Gene Ontology Consortium," Nat Genet, vol. 25, pp. 25- 9, May 2000.
4. M. Suderman and M. Hallett, "Tools for visually exploring biological networks," Bioinformatics, vol. 23, pp. 2651-9, Oct 15 2007.
5. W. Huang da, et al., "Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists," Nucleic Acids Res, vol. 37, pp. 1-13, Jan 2009.
6. J. L. Morrison, et al., "GeneRank: using search engine technology for the analysis of microarray experiments," BMC Bioinformatics, vol. 6, p. 233, 2005.
7. I. Trajkovski, et al., "Learning Relational Descriptions of Differentially Expressed Gene Groups," IEEE TRANSACTIONS ON SYSTEMS, MAN, AND CYBERNETICS 1, vol. 38, pp. 16-25, 2008.
8. C. Wang, et al., "Knowledge-guided gene ranking by coordinative component analysis," BMC Bioinformatics, vol. 11, p. 162, Mar 30 2010.
9. P. Moulos, et al., "A transcriptomic computational analysis of mastic oil-treated Lewis lung carcinomas reveals molecular mechanisms targeting tumor cell growth and survival," BMC Med Genomics, vol. 2, p. 68, 2009.
10. C. Gao, et al., "Graph ranking for exploratory gene data analysis," BMC Bioinformatics, vol. 10 Suppl 11, p. S19, 2009.
11. [http://www.R-project.org]. R: A Language and Environment for Statistical Computing. Available: [http://www.R-project.org]
12. R. C. Gentleman, et al., "Bioconductor: open software development for computational biology and bioinformatics," Genome Biol, vol. 5, p. R80, 2004.
13. W. Huber, et al., "Graphs in molecular biology," BMC Bioinformatics, vol. 8 Suppl 6, p. S8, 2007.
14. F. Hong and R. Breitling, "A comparison of meta-analysis methods for detecting differentially expressed genes in microarray experiments," Bioinformatics, vol. 24, pp. 374-82, Feb 1 2008.
15. B. Dasgupta, et al., "The neurofibromatosis 1 gene product neurofibromin regulates pituitary adenylate cyclase-activating polypeptide-mediated signaling in astrocytes," J Neurosci, vol. 23, pp. 8949-54, Oct 1 2003.
16. V. C. Williams, et al., "Neurofibromatosis type 1 revisited," Pediatrics, vol. 123, pp. 124-33, Jan 2009.
17. T. G. Nishanian and T. Waldman, "Interaction of the BMPR-IA tumor suppressor with a developmentally relevant splicing factor," Biochem Biophys Res Commun, vol. 323, pp. 91-7, Oct 8 2004.