NDLI: Optimizing information flow in small genetic networks.

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Optimizing information flow in small genetic networks.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Tkacik, Gasper Walczak, Aleksandra M. Bialek, William
Description	Country affiliation: United States Author Affiliation: Tkacik G ( Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6396, USA. gtkacik@sas.upenn.edu)
Abstract	In order to survive, reproduce, and (in multicellular organisms) differentiate, cells must control the concentrations of the myriad different proteins that are encoded in the genome. The precision of this control is limited by the inevitable randomness of individual molecular events. Here we explore how cells can maximize their control power in the presence of these physical limits; formally, we solve the theoretical problem of maximizing the information transferred from inputs to outputs when the number of available molecules is held fixed. We start with the simplest version of the problem, in which a single transcription factor protein controls the readout of one or more genes by binding to DNA. We further simplify by assuming that this regulatory network operates in steady state, that the noise is small relative to the available dynamic range, and that the target genes do not interact. Even in this simple limit, we find a surprisingly rich set of optimal solutions. Importantly, for each locally optimal regulatory network, all parameters are determined once the physical constraints on the number of available molecules are specified. Although we are solving an oversimplified version of the problem facing real cells, we see parallels between the structure of these optimal solutions and the behavior of actual genetic regulatory networks. Subsequent papers will discuss more complete versions of the problem.
File Format	HTM / HTML
ISSN	24700045
e-ISSN	24700053
Journal	Physical Review E
Part	Pt 1
Issue Number	3
Volume Number	80
Language	English
Publisher	American Physical Society
Publisher Date	2009-09-01
Publisher Place	United States
Access Restriction	Open
Subject Keyword	Discipline Biophysics Gene Regulatory Networks Models, Genetic Animals Cells Metabolism Gene Expression Regulation Transcription Factors Research Support, N.i.h., Extramural Research Support, Non-u.s. Gov't Research Support, U.s. Gov't, Non-p.h.s.
Content Type	Text
Resource Type	Article
Subject	Statistics and Probability Statistical and Nonlinear Physics Condensed Matter Physics

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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