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General Information
Manuscript title The selective control of glycolysis, gluconeogenesis and glycogenesis by temporal insulin patterns.
PubMed ID 23670537
Journal Molecular Sytems Biology
Year 2013
Authors Rei Noguchi, Hiroyuki Kubota, Katsuyuki Yugi, Yu Toyoshima, Yasunori Komori, Tomoyoshi Soga, Shinya Kuroda
Affiliations Department of Computational Biology, Graduate School of Frontier Sciencies, The University of Tokyo, Kashiwa, Chiba, Japan
Keywords glucose metabolism, insulin, computational model, network motif, temporal coding
Full text article Rei_2013.pdf
Project name not specified

Experiment Description
Organism Rattus
Strain not specified
Data type time-series data of metabolites
Data units µM
Execution date not specified

Experimental Details
Temperature (°C) not specified
pH not specified
Carbon source glucose
Culture mode batch
Process condition aerobic
Dilution rate (h⁻¹)
Working volume (L) not specified
Biomass concentration (g/L) not specified
Medium composition

RPMI medium supplemented with 10% (v/v) fetal bovine serum for 2 days before starvation

General protocol information Sampling method: collected manually

Quenching procedure: Stimulated cells washed twice with 5% mannitl and incubated for 10 min in 1ml of methanol containing 25 mM each of the three internal standards (L-methionine sulphone, D-camphor-10-sulphonic acid and 2-(N-morpholin-o)ethanesulfonic acid).

Extraction technique: chloroform-methanol

Sample analyzing method: enzymatic, CE-MS

Methods description - Notes

Metabolome analysis - the stimulated cells were washed twice with 5% mannitol and incubated for 10 min in 1 ml of methanol containing 25 µM each of the three internal standards (L-methionine sulphone, D-camphor-10-sulphonic acid and 2-(N-morpholin-o)ethanesulfonic acid). Aft ...

[1] Soga T, Baran R, Suematsu M, Ueno Y, Ikeda S, Sakurakawa T, KakazuY, Ishikawa T, Robert M, Nishioka T, Tomita M (2006). Differential metabolomics reveals ophthalmic acid as an oxidative stress biomarker indicating hepatic glutathione consumption. J Biol Chem 281: 16768–16776.
[2] Soga T, Igarashi K, Ito C, Mizobuchi K, Zimmermann H-P, Tomita M (2009) Metabolomic profiling of anionic metabolites by capillary electrophoresis mass spectrometry. Anal Chem 81: 6165–6174.
[3] Le Cam A, Freychet P (1977) Neutral amino acid transport. Characterization of the A and L systems in isolated rat hepatocytes. J Biol Chem 252: 148–156.

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KIMODATAID59_insulin_100nM_timeseries.csv Preview
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KIMODATAID59_insulin_1nM_timeseries.csv Preview
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Submission and curation

Entered by: Administrator KiMoSysFirst name: Administrator
Affiliation: INESC-ID/IST
Interests: mathematical modeling, accessible data, use of data

Created: 2013-06-07 13:36:43 UTC

Updated: 2020-04-24 16:10:32 UTC

Version: 0

Status: (reviewed) 2013-12-06 17:17:38 UTC

Views: 157

Downloads: 21

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