Discovering dynamic regulatory pathway by applying an auto regressive model to time series DNA microarray data

Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings

Volumn 26 IV, Issue , 2004, Pages 2941-2944

  Darvish, A ^a   Hakimzadeh, R ^a   Najarian, Kayvan ^a  

^a UNIVERSITY OF NORTH CAROLINA AT CHARLOTTE   (United States)

Author keywords

Microarray analysis; Pathway identification; Systems biology

Indexed keywords

BOOLEAN NETWORKS; MICROARRAY ANALYSIS; PATHWAY IDENTIFICATION; SYSTEMS BIOLOGY;

ARRAYS; CELLS; DATA ACQUISITION; HEURISTIC METHODS; IDENTIFICATION (CONTROL SYSTEMS); MOTION PLANNING;

REGRESSION ANALYSIS;

EID: 11144331056     PISSN: 05891019     EISSN: None     Source Type: Conference Proceeding    
DOI: None     Document Type: Conference Paper

References (13)

1. Cho,R.J., Campbell,M.J., Winzeler,E.A., Steinmetz,L., Conway,A., Wodicka,L., Wolfsberg,T.G., Gabrielian,A.E., Landsman,D.,Lockhart,D.J., Davis,R.W. "A Genome-Wide Transcriptional Analysis of the Mitotic Cell Cycle" 1998, Molecular Cell, Vol. 2, 65-73.
2. Hartemink AJ, Gifford DK, Jaakkola TS, Young RA," Combining location and expression data for principled discovery of genetic regulatory network models",2002, Pac Symp Biocomput. 437-49
3. Zweiger,G. "Knowledge discovery in gene expression microarray data: mining the information output of the genome" Trends Bioteh.1999,17,429-436
4. M.B. Eisen, P.T. Spellman, P.O. Brown, and D. Botstein."Cluster analysis and display of genome-wide expression patterns". PNAS,1998, 95:14863-14868.
5. R. Sharan and R. Shamir. "Click: A clustering algorithm for gene expression analysis." In ISMB00,2000.
6. Kauffman.S.A. "The origins of order, Self-Organization and Selection in Evaluation" 1993, Oxford Press University
7. Arkin,A. Ross,J, McAdams,H.H "Stochastic Kinetic Analysis of developmental pathways bifurcation in phage lambda infected Escherichia coli cells",1998,. Genetics, 149, 1633-1648
8. Gat-Viks, R. Shamir "Chain functions and scoring functions in genetic networks. Biooinformatics",2003,Vol19, pp. i108-i117
9. Yuh,C.H., Bolouri,H. and Davidson,E.H. "Genomic cis-regulatory network: experimental and computational analysis of a sea urchin gene.", 1998, Science, 279, 1896-1902.
10. Akutsu,T., Miyano,S. and Kuhara,S. "Identification of genetic networks from a small number of gene expression patterns under the boolean network model.",1999, In Proceedings of the 1999 Pacific Symposium in Biocomputing (PSB 99). pp. 17-28
11. Kholodenko,B.N., Anatoly Kiyatkin, Frank J. Bruggeman, Eduardo Sontag, Hans V. Westerhoff,and Jan B. Hoek,"Untangling the wires: A strategy to trace functional interactions in signaling and gene networks" 2002 PNAS Vol. 99 No. 20 pp.12841-12846
12. Yeung M. K. S, Tegne,J.,Collins,J.J. "Reverse engineering gene networks using singular value decomposition and robust regression" 2002,PNAS,Vol. 99,No. 9,pp 6163-6168.
13. Somogyi,R., Fuhrman,S., Askenazi,M. and Wuensche,A, "The gene expression matrix: towards the extraction of genetic network architectures.", 1997,Nonlinear analysis, Proc of Second World Cong. Of Nonlinear Analysts(WCNA96),30(3),1815-182