Bimodal gene expression patterns in breast cancer

被引:27
作者
Bessarabova, Marina [2 ]
Kirillov, Eugene [2 ]
Shi, Weiwei [1 ]
Bugrim, Andrej [1 ]
Nikolsky, Yuri [1 ]
Nikolskaya, Tatiana [2 ]
机构
[1] Genego Inc, St Joseph, MI 49085 USA
[2] Russian Acad Sci, Vavilov Inst Gen Genet, Moscow, Russia
关键词
MOLECULAR PORTRAITS; MICROARRAY; SIGNATURE; PROFILES; CLASSIFICATION; REPRODUCIBILITY; METAANALYSIS; VALIDATION; ACTIVATION; CARCINOMAS;
D O I
10.1186/1471-2164-11-S1-S8
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
We identified a set of genes with an unexpected bimodal distribution among breast cancer patients in multiple studies. The property of bimodality seems to be common, as these genes were found on multiple microarray platforms and in studies with different end-points and patient cohorts. Bimodal genes tend to cluster into small groups of four to six genes with synchronised expression within the group (but not between the groups), which makes them good candidates for robust conditional descriptors. The groups tend to form concise network modules underlying their function in cancerogenesis of breast neoplasms.
引用
收藏
页数:14
相关论文
共 53 条
[1]   A Bayesian framework for the analysis of microarray expression data: regularized t-test and statistical inferences of gene changes [J].
Baldi, P ;
Long, AD .
BIOINFORMATICS, 2001, 17 (06) :509-519
[2]   Robustness, scalability, and integration of a wound-response gene expression signature in predicting breast cancer survival [J].
Chang, HY ;
Nuyten, DSA ;
Sneddon, JB ;
Hastie, T ;
Tibshirani, R ;
Sorlie, T ;
Dai, HY ;
He, YDD ;
van't Veer, LJ ;
Bartelink, H ;
van de Rijn, M ;
Brown, PO ;
van de Vijver, MJ .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2005, 102 (10) :3738-3743
[3]   Integrative analysis of multiple gene expression profiles applied to liver cancer study [J].
Choi, JK ;
Choi, JY ;
Kim, DG ;
Choi, DW ;
Kim, BY ;
Lee, KH ;
Yeom, YI ;
Yoo, HS ;
Yoo, OJ ;
Kim, S .
FEBS LETTERS, 2004, 565 (1-3) :93-100
[4]   Combining multiple microarray studies and modeling interstudy variation [J].
Choi, Jung Kyoon ;
Yu, Ungsik ;
Kim, Sangsoo ;
Yoo, Ook Joon .
BIOINFORMATICS, 2003, 19 :i84-i90
[5]   Network-based classification of breast cancer metastasis [J].
Chuang, Han-Yu ;
Lee, Eunjung ;
Liu, Yu-Tsueng ;
Lee, Doheon ;
Ideker, Trey .
MOLECULAR SYSTEMS BIOLOGY, 2007, 3 (1)
[6]   Strong time dependence of the 76-gene prognostic signature for node-negative breast cancer patients in the TRANSBIG multicenter independent validation series [J].
Desmedt, Christine ;
Piette, Fanny ;
Loi, Sherene ;
Wang, Yixin ;
d'assignies, Mahasti Saghatchian ;
Bergh, Jonas ;
Lidereau, Rosette ;
Ellis, Paul ;
Harris, Adrian L. ;
Klijn, Jan G. M. ;
Foekens, John A. ;
Cardoso, Fatima ;
Piccart, Martine J. ;
Buyse, Marc ;
Sotiriou, Christos .
CLINICAL CANCER RESEARCH, 2007, 13 (11) :3207-3214
[7]   Hypervariable genes-experimental error or hidden dynamics [J].
Dozmorov, I ;
Knowlton, N ;
Tang, YH ;
Shields, A ;
Pathipvanich, P ;
Jarvis, JN ;
Centola, M .
NUCLEIC ACIDS RESEARCH, 2004, 32 (19) :e147
[8]   Thousands of samples are needed to generate a robust gene list for predicting outcome in cancer [J].
Ein-Dor, L ;
Zuk, O ;
Domany, E .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2006, 103 (15) :5923-5928
[9]  
Fisher R. A., 1919, Transactions of the Royal Society of Edinburgh, V52
[10]  
Ghosh Debashis, 2003, Functional & Integrative Genomics, V3, P180