Summary of study ST000261

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 PR000212. The data can be accessed directly via it's Project DOI: 10.21228/M80C7B This work is supported by NIH grant, U2C- DK119886.

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Study IDST000261
Study Title1H NMR metabolomics study of spleen from C57BL/6 mice exposed to gamma radiation
Study TypeTissue Extracts Comparison
Study SummaryTissue extracts from exposure to gamma radiation mouse spleen and controls were compared via NMR based metabolomic analysis
Institute
Pacific Northwest National Laboratory
DepartmentFundamental & Computational Sciences
Last NameHu
First NameJianzhi
Emailjianzhi.hu@pnnl.gov
Submit Date2015-10-26
Raw Data AvailableYes
Raw Data File Type(s).fid
Uploaded File Size24M
Analysis Type DetailNMR
Release Date2015-10-26
Release Version1
Jianzhi Hu Jianzhi Hu
https://dx.doi.org/10.21228/M80C7B
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000212
Project DOI:doi: 10.21228/M80C7B
Project Title:1H NMR metabolomics study of spleen from C57BL/6 mice exposed to gamma radiation
Institute:Pacific Northwest National Laboratory
Department:Fundamental & Computational Sciences
Last Name:Hu
First Name:Jianzhi
Email:jianzhi.hu@pnnl.gov

Subject:

Subject ID:SU000281
Subject Type:Animal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57BL/6J
Species Group:Mammal

Factors:

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

mb_sample_id local_sample_id Disease? (0, no; 1, yes) Dosage (Gy)
SA011995P0470 0
SA011996P0480 0
SA011997P0410 0
SA011998P0460 0
SA011999P0450 0
SA012000P0420 0
SA012001P0430 0
SA012002P0440 0
SA012003P3451 3
SA012004P3441 3
SA012005P3411 3
SA012006P3431 3
SA012007P3421 3
SA012008P7441 7.8
SA012009P7431 7.8
SA012010P7411 7.8
SA012011P7421 7.8
Showing results 1 to 17 of 17

Collection:

Collection ID:CO000275
Collection Summary:Spleens were dissected and snap-frozen at -80°C before NMR spectroscopy and morphology analysis.
Sample Type:Tissue

Treatment:

Treatment ID:TR000295
Treatment Summary:A total of 17 seven-week-old C57BL/6 female mice were randomly grouped before total body being exposed to gamma irradiation using a high activity gamma source (1250 keV 60Co). The linear energy transfer (LET) associated with these fields is in the range of 0.2-2 keV/?m. For the total body gamma radiation, the animals were isolated to the corner of their polymer cages, placed at a minimum of 100 cm from the collimated 6000 Ci 60Co source, and then irradiated to the proposed dosage. The resulting absorbed dose rate at approximately 600 mg/cm2 depth was 0.83Gy/min relative to tissue. Groups of mice were exposed to radiation doses of 0Gy (control, n=8), 3.0Gy (n=5) and 7.8Gy (n=4). After 4 days post exposure, mice were sacrificed with 70/30 CO2/O2 .

Sample Preparation:

Sampleprep ID:SP000289
Sampleprep Summary:Cold Methanol/H2O/Chloroform Extraction
Sampleprep Protocol Comments:Extraction protocol: Step 1: Weight each intact frozen tissue and add 0.25 ml methanol and 0.053 ml deionized water for each sample, after homogenizing in ice bath using the Tissue Tearor (Model 985-370, BioSpec Products, Inc.), then following by vortexing the mixture and then adding 0.125 ml chloroform, vortexing again. Step 2: 0.125 ml chloroform and 0.125 ml deionized water were added to the sample and then vortexed again, following by transferring different layers into glass vials separately with syringes after the mixture being left on ice for 15 min and centrifuged at 6,000 rpm for 16 min at 4 °C. Finally, the MeOH/H2O layer solvents (hydrophilic metabolites) were removed by employing the lyophilizer. And the extracts were stored at ?80 °C freezer before performing NMR measurements.

Chromatography:

Chromatography ID:CH000293

Analysis:

Analysis ID:AN000416
Analysis Type:NMR
Software Version:Vnmrj/ 4.0; Chenomx/8.1
Chromatography ID:CH000293
Num Factors:3

NMR:

NMR ID:NM000058
Analysis ID:AN000416
Instrument Name:Varian 600 MHz
Instrument Type:FT-NMR
NMR Experiment Type:1D
Power Level:Deuterium
Receiver Gain:0.05 mM
Offset Frequency:600 MHZ
Presaturation Power Level:5mm HCN probe with Z axis-gradient
Chemical Shift Ref Cpd:D2O
Temperature:5mm * 8 in
Number Of Scans:Gradient shim
Dummy Scans:PRESAT
Acquisition Time:presat
Relaxation Delay:7.5 us
Zero Filling:DSS
Apodization:293 K
Baseline Correction Method:19968
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