Metabolomics Workbench : NIH Data Repository

MB Sample ID: SA167573

Local Sample ID:	Qstd_1_1
Subject ID:	SU001880
Subject Type:	Human
Subject Species:	Homo sapiens
Taxonomy ID:	9606

Select appropriate tab below to view additional metadata details:

Subject:

Subject ID:	SU001880
Subject Type:	Human
Subject Species:	Homo sapiens
Taxonomy ID:	9606

Factors:

Local Sample ID	MB Sample ID	Factor Level ID	Level Value	Factor Name
Qstd_1_1	SA167573	FL019920	pooled plasma	type

Collection:

Collection ID:	CO001873
Collection Summary:	). Whole human thyroids from five individuals were post-mortem tissues that were acquired from National Disease Research Interchange (NDRI, Philadelphia, PA).
Sample Type:	Thyroid

Treatment:

Treatment ID:	TR001893
Treatment Summary:	Tissue materials were processed similarly with a consistent ratio of 1:5 (sample to hexane-ethyl acetate mixture), i.e., 100 mg lung was homogenized in 300 µL water and extracted with 150 µL formic acid and 400 µL hexane-ethyl acetate mixture, while 40 mg thyroid was homogenized in 250 µL water and extracted with 50 µL formic acid and 200 µL hexane-ethyl acetate mixture. Stool samples (100 mg) were homogenized and extracted directly in 50 µL formic acid and 500 µL hexane-ethyl acetate mixture and then processed as plasma samples. The variation of 1:4 from 1:5 in lung extraction was arbitrary in consideration of the lower density of lung as an organ. The internal standards were spiked at final concentration: 1 ng/mL. The sample mixture was shaken vigorously on ice using multi-tube vortexer (VWR VX-2500) for 1 h and centrifuged at 1000 g, 4 °C for 10 min. The sample mixture was chilled during entire extraction procedure. The organic supernatant was transferred to a new tube with 25 mg MgSO4 (≥99.99% pure, Sigma-Aldrich) for testing of QuEChERS based procedure, and vortexed vigorously to remove water. After 10 min centrifugation at 1000 g, 80 µL of the final supernatant was spiked with instrumental internal standards (final concentration: 1 ng/mL) for analysis.

Treatment ID:

TR001893

Treatment Summary:

Tissue materials were processed similarly with a consistent ratio of 1:5 (sample to hexane-ethyl acetate mixture), i.e., 100 mg lung was homogenized in 300 µL water and extracted with 150 µL formic acid and 400 µL hexane-ethyl acetate mixture, while 40 mg thyroid was homogenized in 250 µL water and extracted with 50 µL formic acid and 200 µL hexane-ethyl acetate mixture. Stool samples (100 mg) were homogenized and extracted directly in 50 µL formic acid and 500 µL hexane-ethyl acetate mixture and then processed as plasma samples. The variation of 1:4 from 1:5 in lung extraction was arbitrary in consideration of the lower density of lung as an organ. The internal standards were spiked at final concentration: 1 ng/mL. The sample mixture was shaken vigorously on ice using multi-tube vortexer (VWR VX-2500) for 1 h and centrifuged at 1000 g, 4 °C for 10 min. The sample mixture was chilled during entire extraction procedure. The organic supernatant was transferred to a new tube with 25 mg MgSO4 (≥99.99% pure, Sigma-Aldrich) for testing of QuEChERS based procedure, and vortexed vigorously to remove water. After 10 min centrifugation at 1000 g, 80 µL of the final supernatant was spiked with instrumental internal standards (final concentration: 1 ng/mL) for analysis.

Sample Preparation:

Sampleprep ID:	SP001886
Sampleprep Summary:	Same as treatment

Combined analysis:

Analysis ID	AN002925
Analysis type	MS
Chromatography type	GC
Chromatography system	Thermo Trace 1310
Column	Agilent DB5-MS (15m x 0.25mm,0.25um)
MS Type	EI
MS instrument type	Orbitrap
MS instrument name	Thermo Q Exactive Orbitrap
Ion Mode	POSITIVE
Units	raw intensity

Chromatography:

Chromatography ID:	CH002167
Chromatography Summary:	Samples were analyzed with three injections using GC-HRMS with a Thermo Scientific Q Exactive GC hybrid quadrupole Orbitrap mass spectrometer with 2 µL per injection. A capillary DB-5MS column (15 m × 0.25 mm × 0.25 µm film thickness) was used with the following temperature program: hold 75 °C for 1 min, 25 °C/min to 180 °C, 6 °C/min to 250 °C, 20 °C/min to 350 °C and hold for 5 min. The flow rate of the helium carrier gas was 1 mL/min. Ion source and transfer line temperatures were 250°C and 280°C, respectively. Data were collected from 3 to 24.37 min with positive electron ionization (EI) mode (+70 eV), scanning from m/z 85.0000 to 850.0000 with a resolution of 60,000.
Instrument Name:	Thermo Trace 1310
Column Name:	Agilent DB5-MS (15m x 0.25mm,0.25um)
Chromatography Type:	GC

MS:

MS ID:	MS002716
Analysis ID:	AN002925
Instrument Name:	Thermo Q Exactive Orbitrap
Instrument Type:	Orbitrap
MS Type:	EI
MS Comments:	Data were collected from 3 to 24.37 min with positive electron ionization (EI) mode (+70 eV), scanning from m/z 85.0000 to 850.0000 with a resolution of 60,000. Raw data were examined by checking signal-to-noise ratio, peak shape and spectral information for surrogate and internal standards using a 5 ppm m/z tolerance and 30 s retention time window in xCalibur Qualbrowser software. Data extraction was performed by XCMS to generate about 40,000 chemical features identified by spectral m/z and retention time.
Ion Mode:	POSITIVE