Summary of Study ST000286

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000228. The data can be accessed directly via it's Project DOI: 10.21228/M86014 This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST000286
Study TitleMouse skeletal myotube chronic low-frequency stimulation
Study TypeElectrical stimulation
Study SummaryCell culture media is collected from mouse myotubes subject to electrical stimulation and control cells with no stimulation.
Institute
University of Florida
Last NameVega
First NameRick
Address--
Emailrvega@sanfordburnham.org
Phone--
Submit Date2015-02-10
Num Groups2
Total Subjects20
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2016-12-22
Release Version1
Rick Vega Rick Vega
https://dx.doi.org/10.21228/M86014
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000228
Project DOI:doi: 10.21228/M86014
Project Title:Identification of novel myokines
Project Type:MS study
Project Summary:Skeletal myotubes release certain factors called myokines following exercise that signal to other tissues including adipose, liver or the heart. These myokines may promote the health benefits of exercise.
Institute:Sanford Burnham Prebys Medical Discovery Institute
Department:Cardiovascular Pathobiology
Last Name:Vega
First Name:Rick
Address:--
Email:rvega@sanfordburnham.org
Phone:--

Subject:

Subject ID:SU000306
Subject Type:Animal cells
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57/Bl6
Subject Comments:Primary mouse myocytes were used for this study. The cells were obtained from gastrocnemius muscle of male 8 weeks-old C57BL/6J mice.
Species Group:Mammals

Factors:

Subject type: Animal cells; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Treatment
SA01307414_2CLFS
SA01307515CLFS
SA01307615_2CLFS
SA01307714CLFS
SA01307813CLFS
SA01307912CLFS
SA01308012_2CLFS
SA01308116CLFS
SA01308213_2CLFS
SA01308317CLFS
SA01308419_2CLFS
SA01308520CLFS
SA01308620_2CLFS
SA01308719CLFS
SA01308818_2CLFS
SA01308911_2CLFS
SA01309017_2CLFS
SA01309118CLFS
SA01309216_2CLFS
SA01309311CLFS
SA0130944Control
SA0130954_2Control
SA0130965Control
SA0130975_2Control
SA0130983_2Control
SA0130993Control
SA0131001_2Control
SA0131012Control
SA0131022_2Control
SA0131036Control
SA0131046_2Control
SA0131059_2Control
SA01310610Control
SA01310710_2Control
SA0131089Control
SA0131098_2Control
SA0131107Control
SA0131117_2Control
SA0131128Control
SA0131131Control
Showing results 1 to 40 of 40

Collection:

Collection ID:CO000300
Collection Summary:Conditioned media was collected from the cell culture dish, and centrifuged at 3000xg, 4¡C for 10 min to remove cell debris. The supernatant was transferred into new tube and stored at -80¡C. For the metabolomics analysis, 500 uL of samples was put into 1.5 mL tube.
Sample Type:Cells

Treatment:

Treatment ID:TR000320
Treatment Summary:Primary mouse myocytes were differentiated into myotubes for 3 days, and electrically stimulated at 2.5V, 1.0 Hz by C-PAGE EP (Ionoptix). Conditioned media was collected every 24 hr of stimulation. Conditioned media from the cells without electrical stimulation was also collected as a negative control.

Sample Preparation:

Sampleprep ID:SP000314
Sampleprep Summary:see Sample Preparation of Cell Lysates.pdf
Sampleprep Protocol Filename:Sample_Preparation_of_Cell_Lysates.pdf

Combined analysis:

Analysis ID AN000454 AN000455
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Thermo Scientific-Dionex Ultimate 3000: Thermo Scientific-Dionex Ultimate 3000:
Column ACE Excel 2 C18-PFP (100 x 2.1mm, 2um) ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
MS Type ESI ESI
MS instrument type Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap
Ion Mode POSITIVE NEGATIVE
Units peak height peak height

Chromatography:

Chromatography ID:CH000324
Chromatography Comments:UHPLC, Thermo Scientific-Dionex Ultimate 3000: While setting up sequence, ensure that method to be utilized is PFP-metabolomics-neg350-NoBuffer-0-SID and PFP-metabolomics-neg-350-dd-MS2 for negative sequences. For positive sequences utilize PFP-metabolomics-pos-350-0-SID and PFP-metabolomics-pos-350-dd-MS2. Check the lines for air bubbles and purge line if present. Set injection volume to 2uL for positive samples and 4uL for negative samples.
Instrument Name:Thermo Scientific-Dionex Ultimate 3000:
Column Name:ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
Chromatography Type:Reversed phase

MS:

MS ID:MS000394
Analysis ID:AN000454
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:POSITIVE
Analysis Protocol File:ST286_Metabolomics_LCMSProtocol.pdf
  
MS ID:MS000395
Analysis ID:AN000455
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:NEGATIVE
Analysis Protocol File:ST286_Metabolomics_LCMSProtocol.pdf
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