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MB Sample ID: SA093729

Local Sample ID:SG174
Subject ID:SU001362
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:SmoA1-Math-GFP
Age Or Age Range:12-36 weeks
Gender:Male and female

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Subject:

Subject ID:SU001362
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:SmoA1-Math-GFP
Age Or Age Range:12-36 weeks
Gender:Male and female

Factors:

Local Sample IDMB Sample IDFactor Level IDLevel ValueFactor Name
SG174SA093729FL013415SmoA1-Math-GFPMice strain
SG174SA093729FL013415PTGroup

Collection:

Collection ID:CO001356
Collection Summary:Mice brain and spinal cord were dissected from each mouse and fluorescence microscopy was used to visualize the tumors. Mice having a GFP signal in the cerebellum only were designated as having a primary tumor without metastasis (PT group, n=18). Mice having a strong GFP signal in the cerebellum and positive GFP signal in the spinal cord were designated as having a primary tumor with metastasis (PTMT group, n=7). With aid of GFP visualization, the primary tumor in each mouse brain was cut from the cerebellum, and immediately frozen using liquid nitrogen, and stored at -80 °C.
Sample Type:Brain
Storage Conditions:-80℃

Treatment:

Treatment ID:TR001377
Treatment Summary:SmoA1-Math1-GFP mice were generated by crossing SmoA1 mice with Math1-driven GFP reporter mice. All mice were kept under the same condition and typically developed detectable MB tumors by MR imaging and clinical symptoms around 23 weeks.

Sample Preparation:

Sampleprep ID:SP001370
Sampleprep Summary:Frozen mice brain tissue samples were cryo-pulverized with liquid nitrogen and weighed. 2-propanol (20 uL/mg) was added to the cryo-pulverized tissue samples to precipitate proteins. Samples were vortex-mixed for 1 min, and centrifuged at 13,000 rpm for 7 min. Following centrifugation, 100 uL of supernatant was transferred to an autosampler vial and analyzed with UPLC-MS. A blank sample, prepared with 100 uL 2-propanol, underwent the same process as the murine tumor samples. A pooled quality control (QC) sample was prepared by mixing a 10 uL aliquot of supernatant of each sample.

Combined analysis:

Analysis ID AN002143 AN002144
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Thermo Dionex Ultimate 3000 Thermo Dionex Ultimate 3000
Column Waters Acquity BEH C18 (50 x 2.1mm,1.7um) Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
MS Type ESI ESI
MS instrument type Orbitrap Orbitrap
MS instrument name Thermo Q Exactive HF hybrid Orbitrap Thermo Q Exactive HF hybrid Orbitrap
Ion Mode POSITIVE NEGATIVE
Units Normalized Peak Abundance Normalized Peak Abundance

Chromatography:

Chromatography ID:CH001569
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
Column Temperature:55
Sample Injection:5μL
Solvent A:60% acetonitrile/40% water; 0.1% formic acid; 10 mM ammonium formate
Solvent B:90% isopropanol/10% acetonitrile; 0.1% formic acid; 10 mM ammonium formate
Chromatography Type:Reversed phase

MS:

MS ID:MS001995
Analysis ID:AN002143
Instrument Name:Thermo Q Exactive HF hybrid Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Samples were analyzed in positive and negative ion modes for RP chromatography. Spectral features were extracted from the raw data using Progenesis QI v2.1 software.
Ion Mode:POSITIVE
Capillary Temperature:275 °C
Spray Voltage:3.0 kV
  
MS ID:MS001996
Analysis ID:AN002144
Instrument Name:Thermo Q Exactive HF hybrid Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Samples were analyzed in positive and negative ion modes for RP chromatography. Spectral features were extracted from the raw data using Progenesis QI v2.1 software.
Ion Mode:NEGATIVE
Capillary Temperature:275 °C
Spray Voltage:-2.8 kV
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