Summary of Study ST001176

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 PR000788. The data can be accessed directly via it's Project DOI: 10.21228/M8TM3P This work is supported by NIH grant, U2C- DK119886.

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

Study ID	ST001176
Study Title	Metabolite changes in human plasma before and after YF17D vaccination in symptomatic and asymptomatic subjects
Study Summary	Plasma was taken before and 1 day post-YF17D vaccination in a total of 13 subjects, of which 6 were asymptomatic and 7 were symptomatic.
Institute	Duke-NUS Medical School
Last Name	Chan
First Name	Kuan Rong
Address	8 College Road Singapore 169857, Singapore, Singapore, 169857, Singapore
Email	kuanrong.chan@duke-nus.edu.sg
Phone	90058277
Submit Date	2019-04-25
Num Groups	2
Total Subjects	13
Raw Data Available	Yes
Analysis Type Detail	CE-MS
Release Date	2019-05-15
Release Version	1

Select appropriate tab below to view additional metadata details:

Project:

Project ID:	PR000788
Project DOI:	doi: 10.21228/M8TM3P
Project Title:	Metabolite analysis of subjects before and after YF17D vaccination
Project Type:	CE-MS/MS analysis
Project Summary:	CE-MS/MS analysis of plasma from subjects given the Yellow Fever live-attenuated vaccine (YF17D). Plasma metabolites were measured before vaccination (day 0) or 1 day after vaccination.
Institute:	Duke-NUS Medical School
Department:	Emerging Infectious Diseases
Last Name:	Chan
First Name:	Kuan Rong
Address:	8 College Road Singapore 169857, Singapore, Singapore, 169857, Singapore
Email:	kuanrong.chan@duke-nus.edu.sg
Phone:	90058277

Subject:

Subject ID:	SU001242
Subject Type:	Human
Subject Species:	Homo sapiens
Taxonomy ID:	9606

Factors:

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

mb_sample_id	local_sample_id	Outcome	Day post-vaccination
SA081573	C1_d0	Asymptomatic	day 0
SA081574	C6_d0	Asymptomatic	day 0
SA081575	C5_d0	Asymptomatic	day 0
SA081576	C2_d0	Asymptomatic	day 0
SA081577	C3_d0	Asymptomatic	day 0
SA081578	C4_d0	Asymptomatic	day 0
SA081579	C6_d1	Asymptomatic	day 1
SA081580	C5_d1	Asymptomatic	day 1
SA081581	C2_d1	Asymptomatic	day 1
SA081582	C1_d1	Asymptomatic	day 1
SA081583	C4_d1	Asymptomatic	day 1
SA081584	C3_d1	Asymptomatic	day 1
SA081585	AE6_d0	Symptomatic	day 0
SA081586	AE5_d0	Symptomatic	day 0
SA081587	AE7_d0	Symptomatic	day 0
SA081588	AE2_d0	Symptomatic	day 0
SA081589	AE4_d0	Symptomatic	day 0
SA081590	AE1_d0	Symptomatic	day 0
SA081591	AE3_d0	Symptomatic	day 0
SA081592	AE6_d1	Symptomatic	day 1
SA081593	AE7_d1	Symptomatic	day 1
SA081594	AE5_d1	Symptomatic	day 1
SA081595	AE3_d1	Symptomatic	day 1
SA081596	AE1_d1	Symptomatic	day 1
SA081597	AE2_d1	Symptomatic	day 1
SA081598	AE4_d1	Symptomatic	day 1

Showing results 1 to 26 of 26

Showing results 1 to 26 of 26

Collection:

Collection ID:	CO001236
Collection Summary:	Plasma collected from subjects in EDTA-treated tubes before (day 0) and 1 day post-YF17D vaccination
Sample Type:	Blood (plasma)

Treatment:

Treatment ID:	TR001257
Treatment Summary:	Subjects were all given the YF17D vaccine, of which 6 were asymptomatic and 7 were symptomatic after vaccination. Plasma was collected before (day 0) and 1 day post-YF17D vaccination

Sample Preparation:

Sampleprep ID:	SP001250
Sampleprep Summary:	CE-MS/MS profiling was conducted by Basic Scan package of Human Metabolome Technologies (HMT) using capillary electrophoresis time-of-flight mass spectrometry (CE-TOFMS).Briefly, CE-TOFMS analysis was carried out using an Agilent CE capillary electrophoresis system equipped with an Agilent 6210 time-of-flight mass spectrometer, Agilent 1100 isocratic HPLC pump, Agilent G1603A CE-MS adapter kit, and Agilent G1607A CE-ESI-MS sprayer kit (Agilent Technologies, Waldbronn, Germany). The systems were controlled by Agilent G2201AA ChemStation software version B.03.01 for CE (Agilent Technologies) and connected by a fused silica capillary (50 μm i.d. × 80 cm total length) with commercial electrophoresis buffer (H3301-1001 and H3302-1021 for cation and anion analyses, respectively, HMT) as the electrolyte. The spectrometer was scanned from m/z 50 to 1,000. Peaks were extracted using MasterHands, automatic integration software (Keio University, Tsuruoka, Yamagata, Japan) in order to obtain peak information including m/z, peak area, and migration time (MT)43. Signal peaks corresponding to isotopomers, adduct ions, and other product ions of known metabolites were excluded, and remaining peaks were annotated according to the HMT metabolite database based on their m/z values with the MTs. Areas of the annotated peaks were then normalized based on internal standard levels and sample volumes in order to obtain relative levels of each metabolite.

Sampleprep ID:

SP001250

Sampleprep Summary:

CE-MS/MS profiling was conducted by Basic Scan package of Human Metabolome Technologies (HMT) using capillary electrophoresis time-of-flight mass spectrometry (CE-TOFMS).Briefly, CE-TOFMS analysis was carried out using an Agilent CE capillary electrophoresis system equipped with an Agilent 6210 time-of-flight mass spectrometer, Agilent 1100 isocratic HPLC pump, Agilent G1603A CE-MS adapter kit, and Agilent G1607A CE-ESI-MS sprayer kit (Agilent Technologies, Waldbronn, Germany). The systems were controlled by Agilent G2201AA ChemStation software version B.03.01 for CE (Agilent Technologies) and connected by a fused silica capillary (50 μm i.d. × 80 cm total length) with commercial electrophoresis buffer (H3301-1001 and H3302-1021 for cation and anion analyses, respectively, HMT) as the electrolyte. The spectrometer was scanned from m/z 50 to 1,000. Peaks were extracted using MasterHands, automatic integration software (Keio University, Tsuruoka, Yamagata, Japan) in order to obtain peak information including m/z, peak area, and migration time (MT)43. Signal peaks corresponding to isotopomers, adduct ions, and other product ions of known metabolites were excluded, and remaining peaks were annotated according to the HMT metabolite database based on their m/z values with the MTs. Areas of the annotated peaks were then normalized based on internal standard levels and sample volumes in order to obtain relative levels of each metabolite.

Combined analysis:

Analysis ID	AN001952
Analysis type	MS
Chromatography type	CE
Chromatography system	Agilent 6210
Column	Agilent capillary electrophoresis system
MS Type	ESI
MS instrument type	CE-TOF
MS instrument name	Agilent 6210 TOF
Ion Mode	UNSPECIFIED
Units	uM

Chromatography:

Chromatography ID:	CH001415
Chromatography Summary:	CEMS conducted by Basic Scan package of Human Metabolome 239 Technologies (HMT)
Instrument Name:	Agilent 6210
Column Name:	Agilent capillary electrophoresis system
Chromatography Type:	CE

MS:

MS ID:	MS001807
Analysis ID:	AN001952
Instrument Name:	Agilent 6210 TOF
Instrument Type:	CE-TOF
MS Type:	ESI
MS Comments:	The spectrometer was scanned from m/z 50 to 1,000. Peaks were extracted using MasterHands, automatic integration software (Keio University, Tsuruoka, Yamagata, Japan) in order to obtain peak information including m/z, peak area, and migration time (MT)43. Signal peaks corresponding to isotopomers, adduct ions, and other product ions of known metabolites were excluded, and remaining peaks were annotated according to the HMT metabolite database based on their m/z values with the MTs. Areas of the annotated peaks were then normalized based on internal standard levels and sample volumes in order to obtain relative levels of each metabolite. Partial least square discriminant analysis was performed by HMT’s proprietary software, PeakStat and SampleStat, respectively. Pathway analysis is performed by MetaboAnalyst 4.0.
Ion Mode:	UNSPECIFIED