Return to study ST002003 main page
MB Sample ID: SA187555
Local Sample ID: | CD010_043 |
Subject ID: | SU002084 |
Subject Type: | Human |
Subject Species: | Homo sapiens |
Taxonomy ID: | 9606 |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU002084 |
Subject Type: | Human |
Subject Species: | Homo sapiens |
Taxonomy ID: | 9606 |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
CD010_043 | SA187555 | FL023129 | control | treatment |
Collection:
Collection ID: | CO002077 |
Collection Summary: | Plasma was collected from case and control patients |
Sample Type: | Blood (plasma) |
Treatment:
Treatment ID: | TR002096 |
Treatment Summary: | Case versus control |
Sample Preparation:
Sampleprep ID: | SP002090 |
Sampleprep Summary: | Extraction is carried out using a bi-phasic solvent system of cold methanol, methyl tert-butyl ether (MTBE), and water. In more detail, cold methanol (225 µL is added to a 5mg tissue sample aliquot, which is placed into a 1.5 mL Eppendorf tube. Then, 750 µL of cold MTBE is added, followed by vortexing for 10 s. and shaking for 6 min. at 4ºC. Phase separation is induced by adding 188 µL of mass spec-grade water. After vortexing for 20 s. the sample is centrifuged at 14,000 rpm for 2 min. The upper organic phase is collected in two 300 µL aliquots for lipid analysis polar layer is collected in two 125 µL aliquots for HILIC analysis. One is stored at -20ºC as a backup and the other is evaporated to dryness in a SpeedVac. Dried extracts are resuspended in acetonitrile. |
Combined analysis:
Analysis ID | AN003266 |
---|---|
Analysis type | MS |
Chromatography type | HILIC |
Chromatography system | Agilent 6600 |
Column | Waters Acquity UPLC BEH amide,(150 x 2.1mm,1.7um) |
MS Type | ESI |
MS instrument type | TTOF |
MS instrument name | Agilent 6560 Ion Mobility |
Ion Mode | POSITIVE |
Units | normalized peak height |
Chromatography:
Chromatography ID: | CH002410 |
Chromatography Summary: | The LC/QTOFMS analyses are performed using an Agilent 1290 Infinity LC system (G4220A binary pump, G4226A autosampler, and G1316C Column Thermostat) coupled to a SCIEX Triple TOF mass spectrometer. Polar compounds are separated on an Acquity UPLC BEH Amide Column, 130Å, 1.7 µm, 2.1 mm X 150 mm maintained at 45°C at a flow-rate of 0.4 mL/min. Solvent pre-heating (Agilent G1316) was used. The mobile phases consist of: Water, 10 mM Ammonium Formate, 0.125% Formic Acid (A) and Acetonitrile: Water (95/5, v/v), 10 mM Ammonium Formate, 0.125% Formic Acid (B) |
Instrument Name: | Agilent 6600 |
Column Name: | Waters Acquity UPLC BEH amide,(150 x 2.1mm,1.7um) |
Column Temperature: | 45 |
Flow Rate: | 0.4 mL/min |
Solvent A: | 100% water; 0.125% formic acid; 10 mM ammonium formate |
Solvent B: | 95% acetonitrile/5% water; 0.125% formic acid; 10 mM ammonium formate |
Chromatography Type: | HILIC |
MS:
MS ID: | MS003038 |
Analysis ID: | AN003266 |
Instrument Name: | Agilent 6560 Ion Mobility |
Instrument Type: | TTOF |
MS Type: | ESI |
MS Comments: | SCIEX Triple TOF 6600mass spectrometers are operated with electrospray ionization (ESI) performing full scan in the mass range m/z 50–1200. Number of cycles in MS1 is 1667 with cycle time of 500ms and accumulation time 475ms. Mass spectrometer parameters are as follows (positive mode) Gas Temp 300°C, gas pressures in psi units with : GS1 and GS2 50 psi, CUR: 35. ISVF is 4500V and DP and CE are 10V and 100 V. |
Ion Mode: | POSITIVE |