From in vivo to in silico biology and back

被引:200
作者
Di Ventura, Barbara [1 ]
Lemerle, Caroline [1 ]
Michalodimitrakis, Konstantinos [1 ]
Serrano, Luis [1 ]
机构
[1] European Mol Biol Lab, D-69117 Heidelberg, Germany
关键词
D O I
10.1038/nature05127
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
The massive acquisition of data in molecular and cellular biology has led to the renaissance of an old topic: simulations of biological systems. Simulations, increasingly paired with experiments, are being successfully and routinely used by computational biologists to understand and predict the quantitative behaviour of complex systems, and to drive new experiments. Nevertheless, many experimentalists still consider simulations an esoteric discipline only for initiates. Suspicion towards simulations should dissipate as the limitations and advantages of their application are better appreciated, opening the door to their permanent adoption in everyday research.
引用
收藏
页码:527 / 533
页数:7
相关论文
共 78 条
[1]   Computer-aided resolution of an experimental paradox in bacterial chemotaxis [J].
Abouhamad, WN ;
Bray, D ;
Schuster, M ;
Boesch, KC ;
Silversmith, RE ;
Bourret, RB .
JOURNAL OF BACTERIOLOGY, 1998, 180 (15) :3757-3764
[2]   Experimental and in silico analyses of glycolytic flux control in bloodstream form Trypanosoma brucei [J].
Albert, MA ;
Haanstra, JR ;
Hannaert, V ;
Van Roy, J ;
Opperdoes, FR ;
Bakker, BM ;
Michels, PAM .
JOURNAL OF BIOLOGICAL CHEMISTRY, 2005, 280 (31) :28306-28315
[3]   Simulation and validation of modelled sphingolipid metabolism in Saccharomyces cerevisiae [J].
Alvarez-Vasquez, F ;
Sims, KJ ;
Cowart, LA ;
Okamoto, Y ;
Voit, EO ;
Hannun, YA .
NATURE, 2005, 433 (7024) :425-430
[4]  
Ander M., 2004, Systems Biology, V1, P129, DOI 10.1049/sb:20045017
[5]  
[Anonymous], 2005, ESAIM P, DOI DOI 10.1051/PROC:2005001
[6]   Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli [J].
Atkinson, MR ;
Savageau, MA ;
Myers, JT ;
Ninfa, AJ .
CELL, 2003, 113 (05) :597-607
[7]   A synthetic multicellular system for programmed pattern formation [J].
Basu, S ;
Gerchman, Y ;
Collins, CH ;
Arnold, FH ;
Weiss, R .
NATURE, 2005, 434 (7037) :1130-1134
[8]   Validation of qualitative models of genetic regulatory networks by model checking:: analysis of the nutritional stress response in Escherichia coli [J].
Batt, G ;
Ropers, D ;
de Jong, H ;
Geiselmann, J ;
Mateescu, R ;
Page, M ;
Schneider, D .
BIOINFORMATICS, 2005, 21 :I19-I28
[9]   Engineering stability in gene networks by autoregulation [J].
Becskei, A ;
Serrano, L .
NATURE, 2000, 405 (6786) :590-593
[10]   Positive feedback in eukaryotic gene networks:: cell differentiation by graded to binary response conversion [J].
Becskei, A ;
Séraphin, B ;
Serrano, L .
EMBO JOURNAL, 2001, 20 (10) :2528-2535