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MB Sample ID: SA340984
Local Sample ID: | 80MeOH_Blank |
Subject ID: | SU003269 |
Subject Type: | Mammal |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Genotype Strain: | NOD Scid Gamma (NSG) |
Age Or Age Range: | ~4.5 months |
Weight Or Weight Range: | 24.3 +/- 1.9 g (mean +/- SD) |
Gender: | Female |
Animal Housing: | Wistar Animal Facility |
Species Group: | Rodents (order Rodentia) |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU003269 |
Subject Type: | Mammal |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Genotype Strain: | NOD Scid Gamma (NSG) |
Age Or Age Range: | ~4.5 months |
Weight Or Weight Range: | 24.3 +/- 1.9 g (mean +/- SD) |
Gender: | Female |
Animal Housing: | Wistar Animal Facility |
Species Group: | Rodents (order Rodentia) |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
80MeOH_Blank | SA340984 | FL040338 | NA | Sample source |
80MeOH_Blank | SA340984 | FL040338 | NA | Isotopic Tracer |
80MeOH_Blank | SA340984 | FL040338 | NA | Drug Treatment |
Collection:
Collection ID: | CO003262 |
Collection Summary: | Tissue metabolite extracts were prepared from ~50 mg snap-frozen tissue samples. Each sample was weighed while frozen. Frozen samples were ground at the temperature of liquid nitrogen by Retch Cryomill. Then, 80% methanol was added to each tube at a ratio of 1 ml per 50 mg of tissue. |
Collection Protocol Filename: | DM_metabolomics_samples.txt |
Sample Type: | Tumor cells |
Collection Method: | 80% methanol extraction |
Volumeoramount Collected: | ~1 ml |
Storage Conditions: | -80℃ |
Collection Vials: | 1.5 ml plastic centrifuge tubes |
Storage Vials: | 1.5 ml plastic centrifuge tubes |
Treatment:
Treatment ID: | TR003278 |
Treatment Summary: | Animals received 1 g/kg [U-13C6] D-glucose bolus intraperitoneally with a 10 mg/kg dose of Fasnall. |
Treatment Compound: | Fasnall |
Treatment Route: | Intraperitoneal injection |
Treatment Dose: | 10 mg/kg |
Treatment Dosevolume: | 50 ul |
Treatment Doseduration: | 1 h |
Treatment Vehicle: | 1:1 DMSO/PBS |
Animal Anesthesia: | None |
Animal Fasting: | None |
Animal Endp Euthanasia: | CO2 |
Animal Endp Tissue Coll List: | 50 mg tumor samples |
Sample Preparation:
Sampleprep ID: | SP003276 |
Sampleprep Summary: | Tissue metabolite extracts were prepared from ~50 mg snap-frozen tissue samples. Each sample was weighed while frozen. Frozen samples were ground at the temperature of liquid nitrogen by Retch Cryomill. Then, 80% methanol was added to each tube at a ratio of 1 ml per 50 mg of tissue. All samples were centrifuged at 18,000 g and 4 °C for 20 min. The supernatant was then transferred to new Eppendorf tubes and centrifuged again with the same parameters. After centrifugation, the extracts were transferred to glass LC-MS vials. |
Sampleprep Protocol Filename: | DM_metabolomics_samples.txt |
Extraction Method: | 80% methanol |
Extract Enrichment: | None |
Extract Cleanup: | None |
Extract Storage: | -80℃ |
Sample Resuspension: | None |
Sample Derivatization: | None |
Sample Spiking: | None |
Subcellular Location: | Intracellular metabolites |
Combined analysis:
Analysis ID | AN005171 | AN005172 |
---|---|---|
Analysis type | MS | MS |
Chromatography type | HILIC | HILIC |
Chromatography system | Thermo Dionex Ultimate 3000 RS | Thermo Dionex Ultimate 3000 RS |
Column | Merck SeQuant ZIC-pHILIC (150 x 2.1mm,5um) | Merck SeQuant ZIC-pHILIC (150 x 2.1mm,5um) |
MS Type | ESI | ESI |
MS instrument type | Orbitrap | Orbitrap |
MS instrument name | Thermo Q Exactive HF-X Orbitrap | Thermo Q Exactive HF-X Orbitrap |
Ion Mode | NEGATIVE | POSITIVE |
Units | AU | AU |
Chromatography:
Chromatography ID: | CH003912 |
Instrument Name: | Thermo Dionex Ultimate 3000 RS |
Column Name: | Merck SeQuant ZIC-pHILIC (150 x 2.1mm,5um) |
Column Temperature: | 40 |
Flow Gradient: | A linear solvent gradient of a total duration 22.5 min was starting with 0.2 ml/min flow rate of 80% solvent B, 12.5 min – 30%, 15 min – 30%, 15.2 min – 80%, 20 min – 80%, 21 min – flow rate 0.3 ml/min, 22 min – flow rate 0.3 ml/min, 22.1 min – flow rate 0.2 ml/min. |
Flow Rate: | 0.2 ml/min |
Solvent A: | 100% Water; 0.01% ammonium hydroxide; 20 mM ammonium bicarbonate |
Solvent B: | 100% Acetonitrile |
Chromatography Type: | HILIC |
MS:
MS ID: | MS004906 |
Analysis ID: | AN005171 |
Instrument Name: | Thermo Q Exactive HF-X Orbitrap |
Instrument Type: | Orbitrap |
MS Type: | ESI |
MS Comments: | The HESI ion source voltage was set to the following parameters: 3,600 V in both polarity modes, sheath gas 30, auxiliary gas 5, spare gas 0, probe heater 200 °C, capillary temperature 325 °C, S-Lens RF level 65. The mass spectrometer was set to acquire data in the polarity-switching mode averaging two microscans with 60,000 resolution, automatic gain control (AGC) target 5e6, scan range 72-1080 m/z, and maximum orbitrap injection time (IT) 200 ms. Data were converted into the mzXML format by ProteoWizard and analyzed in MAVEN. |
Ion Mode: | NEGATIVE |
Ion Source Temperature: | 200 |
Ion Spray Voltage: | 3600 |
Ionization: | Both |
Source Temperature: | 200 |
Automatic Gain Control: | 5e6 |
Dataformat: | RAW |
MS ID: | MS004907 |
Analysis ID: | AN005172 |
Instrument Name: | Thermo Q Exactive HF-X Orbitrap |
Instrument Type: | Orbitrap |
MS Type: | ESI |
MS Comments: | The HESI ion source voltage was set to the following parameters: 3,600 V in both polarity modes, sheath gas 30, auxiliary gas 5, spare gas 0, probe heater 200 °C, capillary temperature 325 °C, S-Lens RF level 65. The mass spectrometer was set to acquire data in the polarity-switching mode averaging two microscans with 60,000 resolution, automatic gain control (AGC) target 5e6, scan range 72-1080 m/z, and maximum orbitrap injection time (IT) 200 ms. Data were converted into the mzXML format by ProteoWizard and analyzed in MAVEN. |
Ion Mode: | POSITIVE |
Ion Source Temperature: | 200 |
Ion Spray Voltage: | 3600 |
Ionization: | Both |
Source Temperature: | 200 |
Automatic Gain Control: | 5e6 |
Dataformat: | RAW |