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
[11]  
BEZRUKOV SM, 2003, P SPIE, V5110
[12]   Design of artificial cell-cell communication using gene and metabolic networks [J].
Bulter, T ;
Lee, SG ;
Woirl, WWC ;
Fung, E ;
Connor, MR ;
Liao, JC .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (08) :2299-2304
[13]   Optimization-based framework for inferring and testing hypothesized metabolic objective functions [J].
Burgard, AP ;
Maranas, CD .
BIOTECHNOLOGY AND BIOENGINEERING, 2003, 82 (06) :670-677
[14]  
Chang Phei Lang, 2005, Chang Gung Med J, V28, P201
[15]   COMPLETE SET OF STEADY-STATES FOR THE GENERAL STOICHIOMETRIC DYNAMICAL SYSTEM [J].
CLARKE, BL .
JOURNAL OF CHEMICAL PHYSICS, 1981, 75 (10) :4970-4979
[16]   Pattern formation by lateral inhibition with feedback: A mathematical model of Delta-Notch intercellular signalling [J].
Collier, JR ;
Monk, NAM ;
Maini, PK ;
Lewis, JH .
JOURNAL OF THEORETICAL BIOLOGY, 1996, 183 (04) :429-446
[17]   Regulation of gene expression in flux balance models of metabolism [J].
Covert, MW ;
Schilling, CH ;
Palsson, B .
JOURNAL OF THEORETICAL BIOLOGY, 2001, 213 (01) :73-88
[18]   Reverse engineering of biological complexity [J].
Csete, ME ;
Doyle, JC .
SCIENCE, 2002, 295 (5560) :1664-1669
[19]   Cell division theory and individual-based modeling of microbial lag - Part I. The theory of cell division [J].
Dens, EJ ;
Bernaerts, K ;
Standaert, AR ;
Van Impe, JF .
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY, 2005, 101 (03) :303-318
[20]   Chemogenomic profiling on a genomewide scale using reverse-engineered gene networks [J].
di Bernardo, D ;
Thompson, MJ ;
Gardner, TS ;
Chobot, SE ;
Eastwood, EL ;
Wojtovich, AP ;
Elliott, SJ ;
Schaus, SE ;
Collins, JJ .
NATURE BIOTECHNOLOGY, 2005, 23 (03) :377-383