CplexA swMATH ID: 32180 Software Authors: J. M. G. Vilar, L. Saiz Description: CplexA: a Mathematica package to study macromolecular-assembly control of gene expression. Macromolecular assembly vertebrates essential cellular processes, such as gene regulation and signal transduction. A major challenge for conventional computational methods to study these processes is tackling the exponential increase of the number of configurational states with the number of components. CplexA is a Mathematica package that uses functional programming to efficiently compute probabilities and average properties over such exponentially large number of states from the energetics of the interactions. The package is particularly suited to study gene expression at complex promoters controlled by multiple, local and distal, DNA binding sites for transcription factors. Homepage: https://arxiv.org/abs/1011.1212 Source Code: https://sourceforge.net/projects/cplexa/files/ Dependencies: Mathematica Keywords: arXiv_q-bio.QM; Statistical Mechanics; arXiv_cond-mat.stat-mech; arXiv_cs.CE; Biological Physics; arXiv_physics.bio-ph; Molecular Networks; arXiv_q-bio.MN; Mathematica package; Macromolecular assembly Related Software: Cellerator; STOCHSIM; Matlab; Python; Mathematica; RegulonDB Cited in: 2 Publications Standard Articles 1 Publication describing the Software Year CplexA: a Mathematica package to study macromolecular-assembly control of gene expression J. M. G. Vilar, L. Saiz 2010 all top 5 Cited by 6 Authors 2 Zhou, Tianshou 1 Din, Anwarud 1 Li, Qingqing 1 Tan, Heli 1 Yuan, Zhanjiang 1 Zhang, Jiajun Cited in 2 Serials 1 International Journal of Bifurcation and Chaos in Applied Sciences and Engineering 1 Journal of Systems Science and Complexity Cited in 1 Field 2 Biology and other natural sciences (92-XX) Citations by Year