title: Scaling of gene expression with transcription-factor fugacity.
abstract: The proteins associated with gene regulation are often shared between multiple pathways simultaneously. By way of contrast, models in regulatory biology often assume these pathways act independently. We demonstrate a framework for calculating the change in gene expression for the interacting case by decoupling repressor occupancy across the cell from the gene of interest by way of a chemical potential. The details of the interacting regulatory architecture are encompassed in an effective concentration, and thus, a single scaling function describes a collection of gene expression data from diverse regulatory situations and collapses it onto a single master curve.
authors.affiliation: Department of Applied Physics, California Institute of Technology, 1200 E. California Boulevard, Pasadena 91125, California, USA.
authors.forename: Franz M
authors.initials: FM
authors.lastname: Weinert
authors.affiliation: Department of Applied Physics, California Institute of Technology, 1200 E. California Boulevard, Pasadena 91125, California, USA and Division of Biology and Biological Engineering, California Institute of Technology, 1200 E. California Boulevard, Pasadena 91125, California, USA.
authors.forename: Robert C
authors.initials: RC
authors.lastname: Brewster
authors.affiliation: Department of Physics, California Institute of Technology, 1200 E. California Boulevard, Pasadena 91125, California, USA and Integrative Research Institute for the Life Sciences and Institute for Theoretical Biology, Humboldt University, Unter den Linden 6, 10099 Berlin, Germany.
authors.forename: Mattias
authors.initials: M
authors.lastname: Rydenfelt
authors.affiliation: Department of Applied Physics, California Institute of Technology, 1200 E. California Boulevard, Pasadena 91125, California, USA and Division of Biology and Biological Engineering, California Institute of Technology, 1200 E. California Boulevard, Pasadena 91125, California, USA.
authors.forename: Rob
authors.initials: R
authors.lastname: Phillips
authors.affiliation: Van 't Hoff Laboratory for Physical and Colloid Chemistry, Debye Research Institute, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands.
authors.forename: Willem K
authors.initials: WK
authors.lastname: Kegel
mesh_terms: D012321:DNA-Directed RNA Polymerases / Q000235:genetics / Q000378:metabolism; D018628:Gene Dosage; D005786:Gene Expression Regulation; D008957:Models, Genetic; D014157:Transcription Factors / Q000235:genetics* / Q000378:metabolism
chemical_list: D014157:Transcription Factors; D012321:DNA-Directed RNA Polymerases