%0 Journal Article %1 Ghosh2011Software %A Ghosh, Samik %A Matsuoka, Yukiko %A Asai, Yoshiyuki %A Hsin, Kun-Yi %A Kitano, Hiroaki %D 2011 %I Nature Publishing Group, a division of Macmillan Publishers Limited. All Rights Reserved. %J Nat Rev Genet %K review software systems-biology %N 12 %P 821--832 %R 10.1038/nrg3096 %T Software for systems biology: from tools to integrated platforms %U http://dx.doi.org/10.1038/nrg3096 %V 12 %X Understanding complex biological systems requires extensive support from software tools. Such tools are needed at each step of a systems biology computational workflow, which typically consists of data handling, network inference, deep curation, dynamical simulation and model analysis. In addition, there are now efforts to develop integrated software platforms, so that tools that are used at different stages of the workflow and by different researchers can easily be used together. This Review describes the types of software tools that are required at different stages of systems biology research and the current options that are available for systems biology researchers. We also discuss the challenges and prospects for modelling the effects of genetic changes on physiology and the concept of an integrated platform.

@article{Ghosh2011Software, abstract = { Understanding complex biological systems requires extensive support from software tools. Such tools are needed at each step of a systems biology computational workflow, which typically consists of data handling, network inference, deep curation, dynamical simulation and model analysis. In addition, there are now efforts to develop integrated software platforms, so that tools that are used at different stages of the workflow and by different researchers can easily be used together. This Review describes the types of software tools that are required at different stages of systems biology research and the current options that are available for systems biology researchers. We also discuss the challenges and prospects for modelling the effects of genetic changes on physiology and the concept of an integrated platform. }, added-at = {2018-12-02T16:09:07.000+0100}, author = {Ghosh, Samik and Matsuoka, Yukiko and Asai, Yoshiyuki and Hsin, Kun-Yi and Kitano, Hiroaki}, biburl = {https://www.bibsonomy.org/bibtex/2f5a43d4078cc70acb3934b40dfd4eeb9/karthikraman}, citeulike-article-id = {9983047}, citeulike-linkout-0 = {http://dx.doi.org/10.1038/nrg3096}, citeulike-linkout-1 = {http://dx.doi.org/10.1038/nrg3096}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/22048662}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=22048662}, day = 03, doi = {10.1038/nrg3096}, interhash = {6ec78b5f3f8449d98625c9d697d65afe}, intrahash = {f5a43d4078cc70acb3934b40dfd4eeb9}, issn = {1471-0064}, journal = {Nat Rev Genet}, keywords = {review software systems-biology}, month = dec, number = 12, pages = {821--832}, pmid = {22048662}, posted-at = {2011-12-13 10:44:34}, priority = {2}, publisher = {Nature Publishing Group, a division of Macmillan Publishers Limited. All Rights Reserved.}, timestamp = {2018-12-02T16:09:07.000+0100}, title = {Software for systems biology: from tools to integrated platforms}, url = {http://dx.doi.org/10.1038/nrg3096}, volume = 12, year = 2011 }