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MB Sample ID: SA001695
Local Sample ID: | SPL203 |
Subject ID: | SU000051 |
Subject Type: | Animal |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Genotype Strain: | NOD/ShiLtj |
Gender: | Male |
Animal Animal Supplier: | Jackson Laboratories |
Animal Housing: | SPF (Helicobacter neg / MNV neg) |
Animal Feed: | normal chow |
Species Group: | Mammal |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU000051 |
Subject Type: | Animal |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Genotype Strain: | NOD/ShiLtj |
Gender: | Male |
Animal Animal Supplier: | Jackson Laboratories |
Animal Housing: | SPF (Helicobacter neg / MNV neg) |
Animal Feed: | normal chow |
Species Group: | Mammal |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
SPL203 | SA001695 | FL000571 | Pool QC | Treatment Group |
Collection:
Collection ID: | CO000034 |
Collection Summary: | - |
Sample Type: | blood |
Collection Time: | 6 weeks |
Blood Serum Or Plasma: | serum |
Treatment:
Treatment ID: | TR000052 |
Treatment Summary: | Three mice were exposed to PAT and 3 mice were non-exposed controls. PAT= therapeutic dose-pulsed antibiotic treatment. |
Treatment Compound: | PAT |
Sample Preparation:
Sampleprep ID: | SP000047 |
Sampleprep Summary: | Frozen serum study samples were thawed on ice and vortexed for 30 seconds. Aliquots of 50/100 µL (sub-study dependent) were transferred into BSI-labeled eppendorf tubes. Purchased mouse sera (Sigma #S7273) was also transferred into three BSI-labeled eppendorf tubes (50/100 µL) for QC samples during analysis. Freshly prepared 0.9% Saline (wt/v) solution in 10% D2O, was added to each tube (150/100 µL) and they were vortexed for 30 seconds. Freshly prepared 10 mM Formate solution containing 2% (wt/v) NaN3 was added to each tube (50 µL) to serve as internal standard and they were vortexed for 30 seconds again, then centrifuged at 12000 rcf for 5 minutes at 4 °C. A 200 µL aliquot of the supernatant was transferred into 3 mm NMR tubes (Bruker-Biospin, Germany), which were kept on ice until data acquisition. |
Sampleprep Protocol Filename: | NOD_Serum_Metabolomics_Procedure.docx |
Analysis:
MB Sample ID: | SA001695 |
Analysis ID: | AN000054 |
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: | CH000035 |
Num Factors: | 3 |
NMR:
NMR ID: | NM000016 |
Analysis ID: | AN000054 |
Instrument Name: | Bruker Avance III |
Instrument Type: | FT-NMR |
NMR Experiment Type: | 1D 1H |
Field Frequency Lock: | Deuterium |
Standard Concentration: | 1.0 mM |
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: | cpmgpr1d |
Water Suppression: | presat |
Pulse Width: | 14.84 us |
Power Level: | 25.704w |
Receiver Gain: | 4.5 |
Offset Frequency: | 3300.70 Hz |
Chemical Shift Ref Cpd: | Formate |
Temperature: | 298.1 K |
Number Of Scans: | 512 |
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: | Formate |