Cell cycle-dependent gene networks relevant to cancer

Progress in Natural Science

Volumn 18, Issue 8, 2008, Pages 945-952

  Xiao, Yun ^a   Li, Xia ^a,b   Yang, Yueying ^a   Wang, Yadong ^c   Rao, Shaoqi ^a,b  

^a HARBIN MEDICAL UNIVERSITY   (China)

^b CAPITAL MEDICAL UNIVERSITY   (China)

^c HARBIN INSTITUTE OF TECHNOLOGY   (China)

Author keywords

Cell cycle; Gene network; HeLa cell; Microarray

Indexed keywords

CYTOLOGY; DISEASES; GENE ONTOLOGY; LANTHANUM COMPOUNDS; ONCOGENIC VIRUSES; PROTEINS;

ALIGNMENT ALGORITHMS; CELL CYCLE; CONDITION; GENE NETWORKS; GENE-GENE RELATIONSHIPS; HELA CELL; LOCAL ALIGNMENT; MICROARRAY DATASET; TRANSCRIPTIONAL NETWORKS; TUMOR BIOLOGY;

GENE EXPRESSION;

EID: 50049098098     PISSN: 10020071     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.pnsc.2008.03.003     Document Type: Article

References (35)

1. A.H.T. Murray The cell cycle 1993 Oxford University Press New York
2. L.H. Hartwell T.A. Weinert Checkpoints: controls that ensure the order of cell cycle events Science 246 4930 1989 629 634
3. L.M. Hereford M.A. Osley T.R. Ludwig 2nd Cell-cycle regulation of yeast histone mRNA Cell 24 2 1981 367 375
4. D.J. Duggan M. Bittner Y. Chen Expression profiling using cDNA microarrays Nat Genet 21 Suppl. 1 1999 10 14
5. S. Kim E.R. Dougherty M.L. Bittner General nonlinear framework for the analysis of gene interaction via multivariate expression arrays J Biomed Opt 5 4 2000 411 424
6. J. Qian M. Dolled-Filhart J. Lin Beyond synexpression relationships: local clustering of time-shifted and inverted gene expression profiles identifies new, biologically relevant interactions J Mol Biol 314 5 2001 1053 1066
7. M.L. Whitfield G. Sherlock A.J. Saldanha Identification of genes periodically expressed in the human cell cycle and their expression in tumors Mol Biol Cell 13 6 2002 1977 2000
8. P.T. Spellman G. Sherlock M.Q. Zhang Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization Mol Biol Cell 9 12 1998 3273 3297
9. C. Cheadle M.P. Vawter W.J. Freed Analysis of microarray data using Z score transformation J Mol Diagn 5 2 2003 73 81
10. C. Niehrs N. Pollet Synexpression groups in eukaryotes Nature 402 6761 1999 483 487
11. M. Levitt M. Gerstein A unified statistical framework for sequence comparison and structure comparison Proc Natl Acad Sci USA 95 11 1998 5913 5920
12. W.R. Pearson Empirical statistical estimates for sequence similarity searches J Mol Biol 276 1 1998 71 84
13. J.D. Han D. Dupuy N. Bertin Effect of sampling on topology predictions of protein–protein interaction networks Nat Biotechnol 23 7 2005 839 844
14. S.L. Carter C.M. Brechbuhler M. Griffin Gene co-expression network topology provides a framework for molecular characterization of cellular state Bioinformatics 20 14 2004 2242 2250
15. E. Ravasz A.L. Somera D.A. Mongru Hierarchical organization of modularity in metabolic networks Science 297 5586 2002 1551 1555
16. S. Peri J.D. Navarro R. Amanchy Development of human protein reference database as an initial platform for approaching systems biology in humans Genome Res 13 10 2003 2363 2371
17. L. Salwinski C.S. Miller A.J. Smith The database of interacting proteins: 2004 update Nucleic Acids Res 32 Database issue 2004 D449 D451
18. M. Ashburner C.A. Ball J.A. Blake Gene ontology: tool for the unification of biology. The Gene Ontology Consortium Nat Genet 25 1 2000 25 29
19. E.S. Lander The new genomics: global views of biology Science 274 5287 1996 536 539
20. K. Amaya T. Ohta H. Kitagawa Angiotensin II activates MAP kinase and NF-kappaB through angiotensin II type I receptor in human pancreatic cancer cells Int J Oncol 25 4 2004 849 856
21. R. Chekerov I. Klaman M. Zafrakas Altered expression pattern of topoisomerase IIalpha in ovarian tumor epithelial and stromal cells after platinum-based chemotherapy Neoplasia 8 1 2006 38 45
22. A.S. Knoop H. Knudsen E. Balslev Retrospective analysis of topoisomerase IIa amplifications and deletions as predictive markers in primary breast cancer patients randomly assigned to cyclophosphamide, methotrexate, and fluorouracil or cyclophosphamide, epirubicin, and fluorouracil: Danish Breast Cancer Cooperative Group J Clin Oncol 23 30 2005 7483 7490
23. A.C. Lazaris N.G. Kavantzas H.S. Zorzos Markers of drug resistance in relapsing colon cancer J Cancer Res Clin Oncol 128 2 2002 114 118
24. N. Tinari R. Lattanzio C. Natoli Changes of topoisomerase IIalpha expression in breast tumors after neoadjuvant chemotherapy predicts relapse-free survival Clin Cancer Res 12 5 2006 1501 1506
25. J.L. Chang T.H. Chen C.F. Wang Borealin/Dasra B is a cell cycle-regulated chromosomal passenger protein and its nuclear accumulation is linked to poor prognosis for human gastric cancer Exp Cell Res 312 7 2006 962 973
26. K. Aaltonen C. Ahlin R.M. Amini Reliability of cyclin A assessment on tissue microarrays in breast cancer compared to conventional histological slides Br J Cancer 94 11 2006 1697 1702
27. H. Astudillo T. Lopez S. Castillo p53, Bcl-2, PCNA expression, and apoptotic rates during cervical tumorigenesis Ann NY Acad Sci 1010 2003 771 774
28. H. Yue H.Y. Jiang Expression of cell cycle regulator p57kip2, cyclinE protein and proliferating cell nuclear antigen in human pancreatic cancer: an immunohistochemical study World J Gastroenterol 11 32 2005 5057 5060
29. K.J. Nan H. Guo Z.P. Ruan Expression of p57(kip2) and its relationship with clinicopathology, PCNA and p53 in primary hepatocellular carcinoma World J Gastroenterol 11 8 2005 1237 1240
30. J. Czyzewska K. Guzinska-Ustymowicz A. Lebelt Evaluation of proliferating markers Ki-67, PCNA in gastric cancers Rocz Akad Med Bialymst 49 Suppl. 1 2004 64 66
31. D. Banks M. Wu L.A. Higa L2DTL/CDT2 and PCNA interact with p53 and regulate p53 polyubiquitination and protein stability through MDM2 and CUL4A/DDB1 complexes Cell Cycle 5 15 2006 1719 1729
32. M. Scheffner K. Munger J.C. Byrne The state of the p53 and retinoblastoma genes in human cervical carcinoma cell lines Proc Natl Acad Sci USA 88 13 1991 5523 5527
33. M. Gerstein Integrative database analysis in structural genomics Nat Struct Biol 7 Suppl. 2000 960 963
34. T. Ito K. Tashiro S. Muta Toward a protein–protein interaction map of the budding yeast: a comprehensive system to examine two-hybrid interactions in all possible combinations between the yeast proteins Proc Natl Acad Sci USA 97 3 2000 1143 1147
35. P. Uetz L. Giot G. Cagney A comprehensive analysis of protein–protein interactions in Saccharomyces cerevisiae Nature 403 6770 2000 623 627