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MB Sample ID: SA289309
| Local Sample ID: | 407 669 |
| Subject ID: | SU002855 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Age Or Age Range: | 8-weeks old |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU002855 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Age Or Age Range: | 8-weeks old |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| 407 669 | SA289309 | FL035670 | Wild-type | Genotype |
| 407 669 | SA289309 | FL035670 | Control | Treatment |
Collection:
| Collection ID: | CO002848 |
| Collection Summary: | No:4 mammary glands were dissected and spread on sterile microscope slides. Lymph nodes were removed, and the glands were cut into thin horizontal stripes before digesting them with Collagenase A (#11088793001, Roche) at 37°C for 3-4 hours. The ductal organoids were then separated from single cells using a 100-um mesh and collected into a tube by flushing them with medium. |
| Sample Type: | Epithelial cells |
Treatment:
| Treatment ID: | TR002864 |
| Treatment Summary: | The mouse model of HER2+ breast cancer, MMTV-Neu-IRES-Cre (MMTV-NIC), is used as the treatment group. |
Sample Preparation:
| Sampleprep ID: | SP002861 |
| Sampleprep Summary: | Ductal organoids were centrifuged, tissue pellets were snap-frozen in liquid nitrogen and then resuspended in 50% Methanol to incubate overnight at 4 °C. Next day, samples were centrifuged at 20,000 x g for 3 min and the top 50 µl supernatant was transferred to a glass autosampler vial with 300 µl insert and capped. Quality control samples were made by pooling 10 µl from each sample. |
Combined analysis:
| Analysis ID | AN004458 |
|---|---|
| Analysis type | MS |
| Chromatography type | HILIC |
| Chromatography system | Thermo-Fisher Ultimate 3000 HPLC |
| Column | Agilent Poroshell 120 HILIC-Z |
| MS Type | ESI |
| MS instrument type | QTOF |
| MS instrument name | Agilent 6600 QTOF |
| Ion Mode | NEGATIVE |
| Units | Peak area |
Chromatography:
| Chromatography ID: | CH003347 |
| Chromatography Summary: | Liquid chromatography-mass spectrometry analysis was performed using a Thermo-Fisher Ultimate 3000 HPLC system consisting of an HPG-3400RS high pressure gradient pump, TCC 3000SD column compartment and WPS 3000 Autosampler, coupled to a SCIEX 6600 TripleTOF Q-TOF mass spectrometer with TurboV ion source. The system was controlled by SCIEX Analyst 1.7.1, DCMS Link and Chromeleon Xpress software. |
| Instrument Name: | Thermo-Fisher Ultimate 3000 HPLC |
| Column Name: | Agilent Poroshell 120 HILIC-Z |
| Column Temperature: | 40 |
| Flow Gradient: | flow rate of 0.25 ml/min, starting at 96 % B for 2 minutes, ramping to 65 % B over 20 min, hold at 65 % B for 2 min, then back to 96 % B |
| Flow Rate: | 0.25 ml/min |
| Solvent A: | 100% water; 10 mM ammonium acetate adjusted to pH 9 with ammonium hydroxide and 20 µM medronic acid |
| Solvent B: | 85% acetonitrile/15% water; 10 mM ammonium acetate adjusted to pH 9 with ammonium hydroxide and 20 µM medronic acid |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS004205 |
| Analysis ID: | AN004458 |
| Instrument Name: | Agilent 6600 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | - |
| Ion Mode: | NEGATIVE |
