Summary of Study ST001044

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 PR000700. The data can be accessed directly via it's Project DOI: 10.21228/M8697H This work is supported by NIH grant, U2C- DK119886.

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Study IDST001044
Study TitlePGC1-A effect on TCA enzymes
Study TypeTracer time course in medium
Study Summary13C6-glucose used to track the effects of PGC1-A on RCC4 and Caki-1 metabolism
Institute
University of Alabama, Birmingham
DepartmentUrology
Last NameSudarshan
First NameSunil
AddressNA
Emailsudarshan@uab.edu
Phone000-000-0000
Submit Date2018-08-31
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Analysis Type DetailGC-MS
Release Date2019-03-06
Release Version1
Sunil Sudarshan Sunil Sudarshan
https://dx.doi.org/10.21228/M8697H
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000700
Project DOI:doi: 10.21228/M8697H
Project Title:PGC1-A induces TCA enzymes
Project Summary:Demonstrate the experimental protocol of stable isotope tracer based metabolomic investigation of cell metabolism
Institute:University of Alabama, Birmingham
Department:Urology
Last Name:Sudarshan
First Name:Sunil
Address:NA
Email:sudarshan@uab.edu
Phone:000-000-0000

Subject:

Subject ID:SU001084
Subject Type:Animal
Subject Species:Mus musculus
Taxonomy ID:10090

Factors:

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

mb_sample_id local_sample_id cell_type protocol.id
SA0704089_Caki-1_adGFP_13CGlc_rep1-cells-polar_GCMS_ACaki-1 adGFP_13CGlc
SA07040910_Caki-1_adGFP_13CGlc_rep2-cells-polar_GCMS_ACaki-1 adGFP_13CGlc
SA07041012_Caki-1_adPGC1A_13CGlc_rep2-cells-polar_GCMS_ACaki-1 adPGC1A_13CGlc
SA07041111_Caki-1_adPGC1A_13CGlc_rep1-cells-polar_GCMS_ACaki-1 adPGC1A_13CGlc
SA0704124_RCC4_adGFP_13CGlc_rep2-cells-polar_GCMS_ARCC4 adGFP_13CGlc
SA0704133_RCC4_adGFP_13CGlc_rep1-cells-polar_GCMS_ARCC4 adGFP_13CGlc
SA0704145_RCC4_adPGC1A_13CGlc_rep1-cells-polar_GCMS_ARCC4 adPGC1A_13CGlc
SA0704156_RCC4_adPGC1A_13CGlc_rep2-cells-polar_GCMS_ARCC4 adPGC1A_13CGlc
Showing results 1 to 8 of 8

Collection:

Collection ID:CO001078
Collection Summary:Collection and quench of cells in tissue culture Media is extracted from plate.
Collection Protocol ID:cell_quench_collection cells_media
Collection Protocol Filename:WS_Fan_Quench_cell_tissue.pdf
Sample Type:Cultured cells

Treatment:

Treatment ID:TR001098
Treatment Summary:Grown in unlabeled glucose and infected with adGFP. Grown in labeled glucose and infected with adGFP. Grown in unlabeled glucose and infected with adPGC1A. Grown in labeled glucose and infected with adPGC1A.
Treatment Protocol ID:adGFP_12CGlc adGFP_13CGlc adPGC1A_12CGlc adPGC1A_13CGlc

Sample Preparation:

Sampleprep ID:SP001091
Sampleprep Summary:Lipid extraction from cells. Polar extraction from cells. Protein extraction and quantification.
Sampleprep Protocol ID:lipid_extraction polar_extraction protein_extraction
Sampleprep Protocol Filename:WS_Fan_Extract_Polar_Lipid_Prot.pdf
WS_Fan_Prot_Quant.pdf

Combined analysis:

Analysis ID AN001708
Analysis type MS
Chromatography type GC
Chromatography system GC-EI-MS, Thermo ITQ
Column SGE 0.15 mm i.d. x 50 m fused silica open-tubular column, coated with 0.25 μm BPX-5 (5% phenylmethyl- phenylsiloxane)
MS Type EI
MS instrument type GC-ITQ
MS instrument name Thermo ITQ
Ion Mode POSITIVE
Units normalized peak area

Chromatography:

Chromatography ID:CH001205
Chromatography Summary:Targeted GC
Instrument Name:GC-EI-MS, Thermo ITQ
Column Name:SGE 0.15 mm i.d. x 50 m fused silica open-tubular column, coated with 0.25 μm BPX-5 (5% phenylmethyl- phenylsiloxane)
Chromatography Type:GC

MS:

MS ID:MS001581
Analysis ID:AN001708
Instrument Name:Thermo ITQ
Instrument Type:GC-ITQ
MS Type:EI
MS Comments:GCMS Analytical Experiment with detection of compounds by comparison to standards. Derivitization is done with MTBSTFA (N-methyl-N-[tert-butyldimethylsilyl]trifluoroacetamide).
Ion Mode:POSITIVE
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