Summary of Study ST000568

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000416. The data can be accessed directly via it's Project DOI: 10.21228/M88S3F This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

Perform statistical analysis | Show all samples | Show named metabolites | Download named metabolite data
Download mwTab file (text) | Download mwTab file(JSON)

Study ID	ST000568
Study Title	Metabolomic study on a schizophrenia and type 2 diabetes susceptibility gene
Study Summary	a comprehensive serum metabolomic analysis in healthy subjects with different genotypes of rs12742393 (n=49 for AA, AC, and CC, respectively) using gas chromatography–time-of-flight mass spectrometry and ultra-performance liquid chromatography quadruple time-of-flight mass spectrometry.
Institute	Shanghai Jiao Tong University Affiliated Sixth People’s Hospital
Last Name	Zhang
First Name	Yinan
Address	600 Yishan Road
Email	zhyn@sjtu.edu.cn
Phone	86-21-24056374
Submit Date	2017-01-15
Study Comments	NOS1AP variant rs12742394
Analysis Type Detail	GC-MS/LC-MS
Release Date	2017-07-10
Release Version	1

Select appropriate tab below to view additional metadata details:

Project:

Project ID:	PR000416
Project DOI:	doi: 10.21228/M88S3F
Project Title:	Metabolomic study on a schizophrenia and type 2 diabetes susceptibility gene Nos1AP-rs12742393
Project Summary:	comprehensive serum metabolomic analysis in healthy subjects with different genotypes of rs12742393 (n=49 for AA, AC, and CC, respectively) using gas chromatography–time-of-flight mass spectrometry and ultra-performance liquid chromatography quadruple time-of-flight mass spectrometry.
Institute:	Shanghai Jiao Tong University Affiliated Sixth People’s Hospital
Last Name:	Zhang
First Name:	Yinan
Address:	600 Yishan Road
Email:	zhyn@sjtu.edu.cn
Phone:	18616691438

Subject:

Subject ID:	SU000590
Subject Type:	serum
Subject Species:	Homo sapiens
Taxonomy ID:	9606
Species Group:	Human

Factors:

Subject type: serum; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id	local_sample_id	Genotype
SA029754	X264_1	AA
SA029755	X263_1	AA
SA029756	X265_1	AA
SA029757	X266_1	AA
SA029758	X268_1	AA
SA029759	X262_1	AA
SA029760	X261_1	AA
SA029761	X257_1	AA
SA029762	X258_1	AA
SA029763	X259_1	AA
SA029764	X260_1	AA
SA029765	X269_1	AA
SA029766	X270_1	AA
SA029767	X277_1	AA
SA029768	X278_1	AA
SA029769	X279_1	AA
SA029770	X231_1	AA
SA029771	X276_1	AA
SA029772	X275_1	AA
SA029773	X271_1	AA
SA029774	X272_1	AA
SA029775	X273_1	AA
SA029776	X274_1	AA
SA029777	X256_1	AA
SA029778	X267_1	AA
SA029779	X239_1	AA
SA029780	X238_1	AA
SA029781	X240_1	AA
SA029782	X241_1	AA
SA029783	X242_1	AA
SA029784	X237_1	AA
SA029785	X236_1	AA
SA029786	X232_1	AA
SA029787	X255_1	AA
SA029788	X234_1	AA
SA029789	X235_1	AA
SA029790	X243_1	AA
SA029791	X233_1	AA
SA029792	X250_1	AA
SA029793	X251_1	AA
SA029794	X252_1	AA
SA029795	X244_1	AA
SA029796	X249_1	AA
SA029797	X253_1	AA
SA029798	X245_1	AA
SA029799	X254_1	AA
SA029800	X246_1	AA
SA029801	X248_1	AA
SA029802	X247_1	AA
SA029803	X312_1	AC
SA029804	X315_1	AC
SA029805	X311_1	AC
SA029806	X314_1	AC
SA029807	X313_1	AC
SA029808	X308_1	AC
SA029809	X316_1	AC
SA029810	X306_1	AC
SA029811	X307_1	AC
SA029812	X309_1	AC
SA029813	X310_1	AC
SA029814	X322_1	AC
SA029815	X326_1	AC
SA029816	X325_1	AC
SA029817	X327_1	AC
SA029818	X328_1	AC
SA029819	X305_1	AC
SA029820	X324_1	AC
SA029821	X323_1	AC
SA029822	X318_1	AC
SA029823	X319_1	AC
SA029824	X320_1	AC
SA029825	X321_1	AC
SA029826	X317_1	AC
SA029827	X304_1	AC
SA029828	X287_1	AC
SA029829	X286_1	AC
SA029830	X288_1	AC
SA029831	X289_1	AC
SA029832	X290_1	AC
SA029833	X285_1	AC
SA029834	X284_1	AC
SA029835	X303_1	AC
SA029836	X281_1	AC
SA029837	X282_1	AC
SA029838	X283_1	AC
SA029839	X291_1	AC
SA029840	X280_1	AC
SA029841	X300_1	AC
SA029842	X301_1	AC
SA029843	X302_1	AC
SA029844	X292_1	AC
SA029845	X298_1	AC
SA029846	X299_1	AC
SA029847	X297_1	AC
SA029848	X293_1	AC
SA029849	X295_1	AC
SA029850	X294_1	AC
SA029851	X296_1	AC
SA029852	X214_1	CC
SA029853	X215_1	CC

Showing page 1 of 2 Results: 1 2 Next Showing results 1 to 100 of 147

Collection:

Collection ID:	CO000584
Collection Summary:	A total of 147 healthy subjects with normal glucose tolerance were included in this study, including 49 subjects of CC homozygotes, 49 subjects of AC heterozygotes, and 49 subjects of AA homozygotes. All subjects included in this study for the metabolomic analysis were matched for age, sex, body mass index (BMI). Serum samples were collected after 8h fasting and stored at −80 °C until analysis. Pooled quality control (QC) samples were prepared by mixing all serum samples from every participant (20 μL each) and then analyzed.
Sample Type:	Blood

Treatment:

Treatment ID:	TR000604
Treatment Summary:	Serum samples were collected after 8h fasting and stored at −80 °C until analysis. Pooled quality control (QC) samples were prepared by mixing all serum samples from every participant (20 μL each) and then analyzed.

Sample Preparation:

Sampleprep ID:	SP000597
Sampleprep Summary:	Sample preparation and analysis by GC-TOFMS: Samples were derivatized and subsequently analyzed by GC-TOFMS following our previously published protocols with minor modifications (Qiu, Cai, Su, Chen, Zheng, Xu, Ni et al. 2009). Briefly, a 100 μL aliquot of serum sample was extracted with 300 μL of methanol: chloroform (3:1) and vortexed for 30 s. After keeping the extract for 10 min at -20 °C, the samples were centrifuged at 12,000 rpm for 10 min. An aliquot of the 300 μL supernatant was transferred to a glass sampling vial, and was spiked with one internal standards (10 μL L-4-chlorophenylalanine in water, 0.3 mg/mL) to vacuum dry at room temperature. The residue was derivatized using a two-step procedure. First, 80 μL methoxyamine (15 mg/mL in pyridine,) was added to the vial and kept at 30 °C for 90 min, second, 80 μL BSTFA (1%TMCS) was added and kept at 70°C for 60 min. Each 1 μL aliquot of the derivatized solution was injected in spitless mode into an Agilent 6890N GC coupled with a Pegasus HT TOFMS (Leco Corp., St. Joseph, MI, USA). The samples were run in the order of AA-AC-CC, alternately, to minimize systematic analytical deviations. One QC sample and one blank vial were run after each 10 test serum samples. Separation was achieved on a DB-5MS capillary column (30 m × 250 µm I.D., 0.25-µm film thickness; (5%-phenyl)-methylpolysiloxane bonded and cross linked; Agilent J&W Scientific, Folsom, CA, USA) with helium as the carrier gas at a constant flow rate of 1.0 mL/min. The temperature of injection, transfer interface, and ion source was set to 270 °C, 270 °C, and 220 °C, respectively. The GC temperature programming was set to 2 min isothermal heating at 80 °C, followed by 10 °C/min oven temperature ramps to 180 °C, 6 °C/min to 230 °C, and 40 °C/min to 295 °C, and a final 8 min maintenance at 295 °C. Electron impact ionization (70 eV) at full scan mode (m/z 30-600) was used, with an acquisition rate of 20 spectra/sec in the TOFMS setting. Sample preparation and analysis by UPLC-QTOFMS: Sample preparation and analysis with UPLC-QTOF-MS was performed according to our published report with minor modifications (Qiu, Cai, Su, Chen, Zheng, Xu, Ni et al. 2009). An aliquot of 40 μL serum was spiked with 20 μL of internal standard (L-4-chlorophenylalanine in water, 30 μg/mL), and extracted with 500 μL of acetonitrile and methanol (9:1) respectively. After vortexing for 2 min, the mixture was kept at -20°C for 10 min, and then centrifuged at 12,000 rpm for 20 min. The supernatant was transferred into the sampling vial pending UPLC-QTOFMS (Waters Corp., Milford, MA, USA) analysis. All the samples were kept at 4°C before injection. An aliquot of 5 µL filtrate was injected at an order of AA-AC-CC, alternately, into a 100 mm×2.1mm, 1.7μm BEH C18 column (Waters Corp., Milford, MA, USA) held at 40°C using an UPLC system (Waters Corp., Milford, MA, USA). One QC sample and one blank vial were run after each 10 serum samples. The column was eluted with a linear gradient of 1-20% B over 0-1 min, 20-70% B over 1-3 min, 70-85% B over 3-8 min, 85-100% B over 8-9 min, the fluent was held at 100% B for 1 min. For electrospray positive ion mode (ES+) analysis, mobile phase was water with 0.1% formic acid, B was acetonitrile with 0.1% formic acid, while A with water and B with acetonitrile for negative ion mode (ES-) analysis. The flow rate was 0.4 mL/min. All the samples were kept at 4 °C during the analysis. The mass spectrometric data were collected using a Waters Q-TOF Premier (Waters Corp., Milford, MA, USA) equipped with an electrospray source operating in either ES+ or ES-. The source temperature was set at 120°C with a cone gas flow of 50 L/h, a desolvation gas temperature of 350°C with a desolvation gas flow of 650 L/h. In the case of positive and negative ion mode, the capillary voltage was set to 3.2 kV and 3 kV, and the cone voltage of 35 V and 50 V, respectively. Centroid data were collected from 50 to 1000 m/z with a scan time of 0.3 s and interscan delay of 0.02 s over a 9.5 min analysis time. MassLynx software (Waters Corp., Milford, MA, USA) was used for system controlling and data acquisition. Leucine enkephalin was used as the lock mass (m/z 556.2771 in ES+ and 554.2615 in ES-) at a concentration of 100 ng/mL and a flow rate of 0.02 mL/min for all analyses. The samples were run in the order of AA-AC-CC, alternately, to minimize systematic analytical deviations. One QC sample and one blank vial were run after each ten serum test samples.

Sampleprep ID:

SP000597

Sampleprep Summary:

Sample preparation and analysis by GC-TOFMS: Samples were derivatized and subsequently analyzed by GC-TOFMS following our previously published protocols with minor modifications (Qiu, Cai, Su, Chen, Zheng, Xu, Ni et al. 2009). Briefly, a 100 μL aliquot of serum sample was extracted with 300 μL of methanol: chloroform (3:1) and vortexed for 30 s. After keeping the extract for 10 min at -20 °C, the samples were centrifuged at 12,000 rpm for 10 min. An aliquot of the 300 μL supernatant was transferred to a glass sampling vial, and was spiked with one internal standards (10 μL L-4-chlorophenylalanine in water, 0.3 mg/mL) to vacuum dry at room temperature. The residue was derivatized using a two-step procedure. First, 80 μL methoxyamine (15 mg/mL in pyridine,) was added to the vial and kept at 30 °C for 90 min, second, 80 μL BSTFA (1%TMCS) was added and kept at 70°C for 60 min. Each 1 μL aliquot of the derivatized solution was injected in spitless mode into an Agilent 6890N GC coupled with a Pegasus HT TOFMS (Leco Corp., St. Joseph, MI, USA). The samples were run in the order of AA-AC-CC, alternately, to minimize systematic analytical deviations. One QC sample and one blank vial were run after each 10 test serum samples. Separation was achieved on a DB-5MS capillary column (30 m × 250 µm I.D., 0.25-µm film thickness; (5%-phenyl)-methylpolysiloxane bonded and cross linked; Agilent J&W Scientific, Folsom, CA, USA) with helium as the carrier gas at a constant flow rate of 1.0 mL/min. The temperature of injection, transfer interface, and ion source was set to 270 °C, 270 °C, and 220 °C, respectively. The GC temperature programming was set to 2 min isothermal heating at 80 °C, followed by 10 °C/min oven temperature ramps to 180 °C, 6 °C/min to 230 °C, and 40 °C/min to 295 °C, and a final 8 min maintenance at 295 °C. Electron impact ionization (70 eV) at full scan mode (m/z 30-600) was used, with an acquisition rate of 20 spectra/sec in the TOFMS setting. Sample preparation and analysis by UPLC-QTOFMS: Sample preparation and analysis with UPLC-QTOF-MS was performed according to our published report with minor modifications (Qiu, Cai, Su, Chen, Zheng, Xu, Ni et al. 2009). An aliquot of 40 μL serum was spiked with 20 μL of internal standard (L-4-chlorophenylalanine in water, 30 μg/mL), and extracted with 500 μL of acetonitrile and methanol (9:1) respectively. After vortexing for 2 min, the mixture was kept at -20°C for 10 min, and then centrifuged at 12,000 rpm for 20 min. The supernatant was transferred into the sampling vial pending UPLC-QTOFMS (Waters Corp., Milford, MA, USA) analysis. All the samples were kept at 4°C before injection. An aliquot of 5 µL filtrate was injected at an order of AA-AC-CC, alternately, into a 100 mm×2.1mm, 1.7μm BEH C18 column (Waters Corp., Milford, MA, USA) held at 40°C using an UPLC system (Waters Corp., Milford, MA, USA). One QC sample and one blank vial were run after each 10 serum samples. The column was eluted with a linear gradient of 1-20% B over 0-1 min, 20-70% B over 1-3 min, 70-85% B over 3-8 min, 85-100% B over 8-9 min, the fluent was held at 100% B for 1 min. For electrospray positive ion mode (ES+) analysis, mobile phase was water with 0.1% formic acid, B was acetonitrile with 0.1% formic acid, while A with water and B with acetonitrile for negative ion mode (ES-) analysis. The flow rate was 0.4 mL/min. All the samples were kept at 4 °C during the analysis. The mass spectrometric data were collected using a Waters Q-TOF Premier (Waters Corp., Milford, MA, USA) equipped with an electrospray source operating in either ES+ or ES-. The source temperature was set at 120°C with a cone gas flow of 50 L/h, a desolvation gas temperature of 350°C with a desolvation gas flow of 650 L/h. In the case of positive and negative ion mode, the capillary voltage was set to 3.2 kV and 3 kV, and the cone voltage of 35 V and 50 V, respectively. Centroid data were collected from 50 to 1000 m/z with a scan time of 0.3 s and interscan delay of 0.02 s over a 9.5 min analysis time. MassLynx software (Waters Corp., Milford, MA, USA) was used for system controlling and data acquisition. Leucine enkephalin was used as the lock mass (m/z 556.2771 in ES+ and 554.2615 in ES-) at a concentration of 100 ng/mL and a flow rate of 0.02 mL/min for all analyses. The samples were run in the order of AA-AC-CC, alternately, to minimize systematic analytical deviations. One QC sample and one blank vial were run after each ten serum test samples.

Combined analysis:

Analysis ID	AN000873	AN000874	AN000875
Analysis type	MS	MS	MS
Chromatography type	GC	Reversed phase	Reversed phase
Chromatography system	Agilent 6890N	Waters	Waters
Column	DB-5MS capillary	Waters Acquity BEH C18 (100 x 2mm,1.7um)	Waters Acquity BEH C18 (100 x 2mm,1.7um)
MS Type	EI	ESI	ESI
MS instrument type	GC x GC-TOF	QTOF	QTOF
MS instrument name	Agilent	Waters	Waters
Ion Mode	POSITIVE	POSITIVE	NEGATIVE
Units	peak area	peak height	peak height

Chromatography:

Chromatography ID:	CH000620
Instrument Name:	Agilent 6890N
Column Name:	DB-5MS capillary
Chromatography Type:	GC

Chromatography ID:	CH000621
Instrument Name:	Waters
Column Name:	Waters Acquity BEH C18 (100 x 2mm,1.7um)
Chromatography Type:	Reversed phase

MS:

MS ID:	MS000774
Analysis ID:	AN000873
Instrument Name:	Agilent
Instrument Type:	GC x GC-TOF
MS Type:	EI
Ion Mode:	POSITIVE

MS ID:	MS000775
Analysis ID:	AN000874
Instrument Name:	Waters
Instrument Type:	QTOF
MS Type:	ESI
Ion Mode:	POSITIVE

MS ID:	MS000776
Analysis ID:	AN000875
Instrument Name:	Waters
Instrument Type:	QTOF
MS Type:	ESI
Ion Mode:	NEGATIVE