Return to study ST000028 main page
MB Sample ID: SA001626
| Local Sample ID: | UPL103 |
| Subject ID: | SU000045 |
| Subject Type: | Animal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Genotype Strain: | C57BL/6 |
| Age Or Age Range: | 8 weeks at collection |
| Gender: | Female |
| Animal Animal Supplier: | Jackson Labs |
| Animal Housing: | Conventional |
| Animal Feed: | High Fat Diet |
| Species Group: | Mammal |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU000045 |
| Subject Type: | Animal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Genotype Strain: | C57BL/6 |
| Age Or Age Range: | 8 weeks at collection |
| Gender: | Female |
| Animal Animal Supplier: | Jackson Labs |
| Animal Housing: | Conventional |
| Animal Feed: | High Fat Diet |
| Species Group: | Mammal |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| UPL103 | SA001626 | FL000552 | Pool QC | Treatment Group |
Collection:
| Collection ID: | CO000028 |
| Collection Summary: | - |
| Sample Type: | urine |
| Collection Time: | 8 weeks |
Treatment:
| Treatment ID: | TR000046 |
| 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: | SP000041 |
| 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: | DuraSTAT_Urine_Metabolomics_Procedure.docx |
Analysis:
| MB Sample ID: | SA001626 |
| Analysis ID: | AN000048 |
| Laboratory Name: | RTI/ DHHMRI |
| Analysis Type: | NMR |
| Analysis Comments: | NMR (700 MHz) |
| Acquisition Date: | 41522 |
| 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: | CH000029 |
| Num Factors: | 3 |
NMR:
| NMR ID: | NM000010 |
| Analysis ID: | AN000048 |
| 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: | 4 |
| Offset Frequency: | 3293.10 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 |
