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MB Sample ID: SA207562
| Local Sample ID: | DT2 |
| Subject ID: | SU002250 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU002250 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| DT2 | SA207562 | FL025451 | TMEM41B knockout | genotype |
Collection:
| Collection ID: | CO002243 |
| Collection Summary: | 1x108 293FT, TMEM41B KO and VMP1 KO cells were washed with PBS thrice before adding 560 µl extraction solvent (methanol:water = 2:5), pre-cooled at −4°C. Cells were then scraped into the extraction solvent on ice and transferred into eppendorf tubes. |
| Sample Type: | Cultured cells |
Treatment:
| Treatment ID: | TR002262 |
| Treatment Summary: | NO TREATMENT |
Sample Preparation:
| Sampleprep ID: | SP002256 |
| Sampleprep Summary: | 1x108 293FT, TMEM41B KO and VMP1 KO cells were washed with PBS thrice before adding 560 µl extraction solvent (methanol:water = 2:5), pre-cooled at −4°C. Cells were then scraped into the extraction solvent on ice and transferred into eppendorf tubes. Then, 800 µL methyl tert-butyl ether (MTBE) was added and the samples were sonicated for 10 min. After centrifugation for 15 min at 3,000 rpm at 4°C to separate phases, the upper layer and lower layer were collected for lipidomics and metabolomics analysis, respectively. |
Combined analysis:
| Analysis ID | AN003546 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Agilent 1290 ultrahigh pressure liquid chromatography system |
| Column | Agilent rapid resolution HT Zorbax SB-C18 |
| MS Type | ESI |
| MS instrument type | QTOF |
| MS instrument name | Agilent 6550 QTOF |
| Ion Mode | POSITIVE |
| Units | Peak area |
Chromatography:
| Chromatography ID: | CH002620 |
| Instrument Name: | Agilent 1290 ultrahigh pressure liquid chromatography system |
| Column Name: | Agilent rapid resolution HT Zorbax SB-C18 |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS003304 |
| Analysis ID: | AN003546 |
| Instrument Name: | Agilent 6550 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | Mass data were collected between m/z 100 and 1000 at a rate of two scans per second. The ion spray voltage was set at 4,000 V, and the heated capillary temperature was maintained at 350°C. The drying gas and nebulizer nitrogen gas flow rates were 12.0 L/min and 50 psi, respectively. Two reference masses were continuously infused to the system to allow constant mass correction during the run: m/z 121.0509 (C5H4N4) and m/z 922.0098 (C18H18O6N3P3F24). Raw spectrometric data were analyzed by MassHunter Qualitative Analysis software (Agilent Technologies, US) and the molecular features characterized by retention time, chromatographic peak intensity and accurate mass, were obtained by using the Molecular Feature Extractor algorithm. The features were then analyzed by MassHunter Mass Profiler Professional software (Agilent Technologies, US). Only features with an intensity ≥ 20,000 counts (approximately three times the limit of detection of our LC-MS instrument), and found in at least 80% of the samples at the same sampling time point signal were kept for further processing. Next, a tolerance window of 0.15 min and 2 mDa was used for alignment of RT and m/z values. |
| Ion Mode: | POSITIVE |
