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MB Sample ID: SA001728
Local Sample ID: | UES365 |
Subject ID: | SU000054 |
Subject Type: | Animal |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Genotype Strain: | C57BL/6 |
Gender: | Female |
Animal Housing: | Conventional |
Animal Feed: | Low phyto-estrogen diet |
Species Group: | Mammal |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU000054 |
Subject Type: | Animal |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Genotype Strain: | C57BL/6 |
Gender: | Female |
Animal Housing: | Conventional |
Animal Feed: | Low phyto-estrogen diet |
Species Group: | Mammal |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
UES365 | SA001728 | FL000580 | STAT | Treatment Group |
Collection:
Collection ID: | CO000037 |
Collection Summary: | - |
Sample Type: | urine |
Collection Time: | 23 weeks |
Treatment:
Treatment ID: | TR000055 |
Treatment Summary: | Three mice were given STAT penicillin and 3 mice were non-treated controls. STAT = sub-therapeutic antibiotic treatment. |
Treatment Compound: | STAT Penicillin |
Sample Preparation:
Sampleprep ID: | SP000050 |
Sampleprep Summary: | Frozen urine study samples were thawed on ice and vortexed for 30 seconds. Aliquots of 400 µL were transferred into BSI-labeled eppendorf tubes. Aliquots of 100 µL per study sample were also transferred into a 10 mL tube to generate pooled samples for QC during analysis, and 400 µL was transferred into BSI-labeled eppendorf tubes. D2O (230 µL) was added to each tube. Chenomx Internal Standard solution (Chenomx ISTD, Edmonton, Alberta, Canada) contains 5mM 4,4-dimethyl-4-silapentane-1-sulfonic acid (DSS, Chemical Shift Indicator), 100 mM Imidazole (pH indicator), and 0.2% NaN3 (to inhibit bacterial growth) was added (70 µl) to the tubes. Tubes were vortexed for 30 seconds and centrifuged at 12000 rcf for 5min. A 600 µL aliquot of the supernatant was transferred into 5mm NMR tubes (Bruker-Biospin, Germany), which were kept on ice until data acquisition. |
Sampleprep Protocol Filename: | EstroSTAT_Urine_Metabolomics_Procedure.docx |
Analysis:
MB Sample ID: | SA001728 |
Analysis ID: | AN000057 |
Laboratory Name: | RTI/ DHHMRI |
Analysis Type: | NMR |
Analysis Comments: | NMR (700 MHz) |
Acquisition Date: | 41527 |
Software Version: | Top Spin 3.2 |
Operator Name: | Wimal Pathmasiri/ Kevin Knagge/ Jason Winnikie |
Randomization Order: | yes |
Detector Type: | NMR |
Data Format: | NMR |
Chromatography ID: | CH000038 |
Num Factors: | 3 |
NMR:
NMR ID: | NM000019 |
Analysis ID: | AN000057 |
Instrument Name: | Bruker Avance III |
Instrument Type: | FT-NMR |
NMR Experiment Type: | 1D 1H |
Field Frequency Lock: | Deuterium |
Standard Concentration: | 0.5mM |
Spectrometer Frequency: | 700 MHz |
NMR Probe: | cyrogenically cooled ATMA inverse probe |
NMR Solvent: | D2O |
NMR Tube Size: | 5mm x 4inch |
Shimming Method: | topshim |
Pulse Sequence: | noesypr1d |
Water Suppression: | presat |
Pulse Width: | 14.84 us |
Power Level: | 25.704w |
Receiver Gain: | 9 |
Offset Frequency: | 3296 Hz |
Chemical Shift Ref Cpd: | DSS |
Temperature: | 298.1 K |
Number Of Scans: | 64 |
Dummy Scans: | 4 |
Acquisition Time: | 2.3243434 |
Relaxation Delay: | 2 s |
Spectral Width: | 20.1358 |
Num Data Points Acquired: | 65536 |
Real Data Points: | 65536 |
Line Broadening: | 0.5 |
Zero Filling: | yes |
Apodization: | lorentzian |
Baseline Correction Method: | polynomial |
Chemical Shift Ref Std: | DSS |