Cellerator: extending a computer algebra system to include biochemical arrows for signal transduction simulations. Export

@article{citeulike:832220, abstract = {Cellerator describes single and multi-cellular signal transduction networks (STN) with a compact, optionally palette-driven, arrow-based notation to represent biochemical reactions and transcriptional activation. Multi-compartment systems are represented as graphs with STNs embedded in each node. Interactions include mass-action, enzymatic, allosteric and connectionist models. Reactions are translated into differential equations and can be solved numerically to generate predictive time courses or output as systems of equations that can be read by other programs. Cellerator simulations are fully extensible and portable to any operating system that supports Mathematica, and can be indefinitely nested within larger data structures to produce highly scaleable models.}, address = {Jet Propulsion Laboratory, California Institute of Technology, Mail Stop 126-347, 4800 Oak Grove Drive, Pasadena, CA 91109, USA. bshapiro@jpl.nasa.gov}, author = {Shapiro, B. E. and Levchenko, A. and Meyerowitz, E. M. and Wold, B. J. and Mjolsness, E. D.}, citeulike-article-id = {832220}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/bioinformatics/btg042}, citeulike-linkout-1 = {http://bioinformatics.oxfordjournals.org/cgi/content/abstract/19/5/677?maxtoshow=&HITS=10&hits=10&RESULTFORMAT=1&author1=shapiro&andorexacttitle=and&andorexacttitleabs=and&andorexactfulltext=and&searchid=1&FIRSTINDEX=0&sortspec=relevance&resourcetype=HWCIT}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/12651737}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=12651737}, comment = {Cellator again.}, day = {22}, doi = {10.1093/bioinformatics/btg042}, issn = {1367-4803}, journal = {Bioinformatics}, keywords = {cellator, computer\_science, tissue\_modelling}, month = {March}, number = {5}, pages = {677--678}, posted-at = {2006-09-14 14:24:53}, priority = {0}, title = {Cellerator: extending a computer algebra system to include biochemical arrows for signal transduction simulations.}, url = {http://dx.doi.org/10.1093/bioinformatics/btg042}, volume = {19}, year = {2003} }

TY - JOUR ID - citeulike:832220 L3 - citeulike-article-id:832220 N2 - Cellerator describes single and multi-cellular signal transduction networks (STN) with a compact, optionally palette-driven, arrow-based notation to represent biochemical reactions and transcriptional activation. Multi-compartment systems are represented as graphs with STNs embedded in each node. Interactions include mass-action, enzymatic, allosteric and connectionist models. Reactions are translated into differential equations and can be solved numerically to generate predictive time courses or output as systems of equations that can be read by other programs. Cellerator simulations are fully extensible and portable to any operating system that supports Mathematica, and can be indefinitely nested within larger data structures to produce highly scaleable models. IS - 5 JF - Bioinformatics SN - 1367-4803 AD - Jet Propulsion Laboratory, California Institute of Technology, Mail Stop 126-347, 4800 Oak Grove Drive, Pasadena, CA 91109, USA. bshapiro@jpl.nasa.gov EP - 678 TI - Cellerator: extending a computer algebra system to include biochemical arrows for signal transduction simulations. VL - 19 SP - 677 KW - cellator KW - computer_science KW - tissue_modelling N1 - Cellator again. AU - Shapiro, BE AU - Levchenko, A AU - Meyerowitz, EM AU - Wold, BJ AU - Mjolsness, ED PY - 2003/03/22/ UR - http://dx.doi.org/10.1093/bioinformatics/btg042 ER -