IsoDesign: A software for optimizing the design of 13C‐metabolic flux analysis experiments. Issue 1 (18th September 2013)

• Record Type: Journal Article
• Authors: Millard, Pierre; Sokol, Serguei; Letisse, Fabien; Portais, Jean‐Charles
• Is Part Of: Biotechnology and bioengineering. Volume 111:Issue 1(2014:Jan.)
• Page Start: 202
• Page End: 208
• Publication Date: 2013-09-18
• Subjects: Biotechnology -- Periodicals; Bioengineering -- Periodicals; 660.6
• DOI: 10.1002/bit.24997
• Languages: English
• ISSNs: 0006-3592

Abstract

<abstract abstract-type="main" xml:lang="en"> <title>ABSTRACT</title> <sec id="bit24997-sec-0001" sec-type="section"> <p>The growing demand for ¹³C‐metabolic flux analysis (¹³C‐MFA) in the field of metabolic engineering and systems biology is driving the need to rationalize expensive and time‐consuming ¹³C‐labeling experiments. Experimental design is a key step in improving both the number of fluxes that can be calculated from a set of isotopic data and the precision of flux values. We present IsoDesign, a software that enables these parameters to be maximized by optimizing the isotopic composition of the label input. It can be applied to ¹³C‐MFA investigations using a broad panel of analytical tools (MS, MS/MS, ¹H NMR, ¹³C NMR, etc.) individually or in combination. It includes a visualization module to intuitively select the optimal label input depending on the biological question to be addressed. Applications of IsoDesign are described, with an example of the entire ¹³C‐MFA workflow from the experimental design to the flux map including important practical considerations. IsoDesign makes the experimental design of ¹³C‐MFA experiments more accessible to a wider biological community. IsoDesign is distributed under an open source license at http://metasys.insa‐toulouse.fr/software/isodes/ Biotechnol. Bioeng. 2014;111: 202–208. © 2013 Wiley Periodicals, Inc.</p> </sec> </abstract>