Summary of Study ST002777

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 PR001732. The data can be accessed directly via it's Project DOI: 10.21228/M8TQ6V This work is supported by NIH grant, U2C- DK119886.

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

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST002777
Study TitleThe ECHO Cohort Exposome: First Steps using HHEAR Analysis – An Opportunity for ALL ECHO Cohorts to Contribute Type A Samples – Untargeted Analysis (Project Viva)
Study TypeProspective Cohort Study
Study SummaryProject Viva is a ground breaking longitudinal research study of women and their children. The initial goal of Project Viva was to find ways to improve the health of mothers and children by looking at the effects of mother's diet as well as other factors during pregnancy and after birth. Over the past two decades, Project Viva has expanded its focus to include a wider range of experiences that influence health extending into midlife for the mothers, and young adulthood for their children. Please see projectviva.org or contact Emily Oken at Project_Viva@point32health.org for more information or questions related to the subject characteristics and outcomes. This research was supported by the Environmental influences on Child Health Outcomes (ECHO) Program, Office of The Director, National Institutes of Health. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. Project Viva is an ECHO cohort which is supported by the following ECHO Program Collaborators: ECHO Coordinating Center: Duke Clinical Research Institute, Durham, North Carolina: Smith PB, Newby KL, Benjamin DK; U2C OD023375 ECHO Data Analysis Center: Johns Hopkins University Bloomberg School of Public Health, Baltimore, Maryland: Jacobson LP; Research Triangle Institute, Durham, North Carolina: Catellier D; U24 OD023382 North Carolina Human Health Exposure Analysis Resource Hub: Research Triangle Institute: Fennell T, University of North Carolina at Chapel Hill: Sumner S, University of North Carolina at Charlotte: Du X; U2C ES030857 Human Health Exposure Analysis Resource Coordinating Center: Westat, Inc., Rockville, Maryland: O’Brien B; U24 ES026539
Institute
Harvard Pilgrim Health Care Institute
DepartmentDepartment of Population Medicine
Last NameOken
First NameEmily
Address401 Park Drive, Suite 401 East Boston, MA 02215
EmailProject_Viva@point32health.org
Phone617-867-4835
Submit Date2023-07-10
Total Subjects1,184
Study CommentsHHEAR Project EM20-0011, ECHO Project EC0376
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Chear StudyYes
Analysis Type DetailLC-MS
Release Date2024-07-10
Release Version1
Emily Oken Emily Oken
https://dx.doi.org/10.21228/M8TQ6V
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001732
Project DOI:doi: 10.21228/M8TQ6V
Project Title:The ECHO Cohort Exposome: First Steps using HHEAR Analysis – An Opportunity for ALL ECHO Cohorts to Contribute Type A Samples – Untargeted Analysis (Project Viva)
Project Type:C18 Reversed-Phase Broad Spectrum Metabolomics
Project Summary:This project was funded by the NIH Environmental influences on Child Health Outcomes (ECHO) Program. Untargeted metabolomics profiling data was acquired from urine samples provided by 14 ECHO cohorts.
Institute:NC HHEAR Hub
Department:Untargeted Analysis
Laboratory:Sumner Lab
Last Name:Rushing
First Name:Blake
Address:Nutrition Research Institute , University of North Carolina at Chapel Hill, 500 Laureate Way Kannapolis, NC 28081
Email:blake_rushing@unc.edu
Phone:(704) 282-9838
Funding Source:This research was supported by the Environmental influences on Child Health Outcomes (ECHO) Program, Office of The Director, National Institutes of Health. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. Project Viva is an ECHO Cohort supported by the following ECHO Program Collaborators: ECHO Coordinating Center: Duke Clinical Research Institute, Durham, North Carolina: Smith PB, Newby KL, Benjamin DK; U2C OD023375; ECHO Data Analysis Center: Johns Hopkins University Bloomberg School of Public Health, Baltimore, Maryland: Jacobson LP; Research Triangle Institute, Durham, North Carolina: Catellier D; U24 OD023382; North Carolina Human Health Exposure Analysis Resource Hub: Research Triangle Institute: Fennell T, University of North Carolina at Chapel Hill: Sumner S, University of North Carolina at Charlotte: Du X; U2C ES030857; Human Health Exposure Analysis Resource Coordinating Center: Westat, Inc., Rockville, Maryland: O’Brien B; U24 ES026539

Subject:

Subject ID:SU002884
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 Sample Type Batch
SA295676VIVA_B_7Blank 1
SA295677VIVA_B_1Blank 1
SA295678VIVA_B_6Blank 1
SA295679VIVA_B_8Blank 1
SA295680VIVA_B_5Blank 1
SA295681VIVA_B_2Blank 1
SA295682VIVA_B_3Blank 1
SA295683VIVA_B_4Blank 1
SA295684VIVA_B_75Blank 10
SA295685VIVA_B_74Blank 10
SA295686VIVA_B_76Blank 10
SA295687VIVA_B_79Blank 10
SA295688VIVA_B_73Blank 10
SA295689VIVA_B_78Blank 10
SA295690VIVA_B_77Blank 10
SA295691VIVA_B_80Blank 10
SA295692VIVA_B_86Blank 11
SA295693VIVA_B_87Blank 11
SA295694VIVA_B_81Blank 11
SA295695VIVA_B_85Blank 11
SA295696VIVA_B_84Blank 11
SA295697VIVA_B_82Blank 11
SA295698VIVA_B_83Blank 11
SA295699VIVA_B_88Blank 11
SA295700VIVA_B_90Blank 12
SA295701VIVA_B_95Blank 12
SA295702VIVA_B_96Blank 12
SA295703VIVA_B_94Blank 12
SA295704VIVA_B_93Blank 12
SA295705VIVA_B_92Blank 12
SA295706VIVA_B_91Blank 12
SA295707VIVA_B_89Blank 12
SA295708VIVA_B_100Blank 13
SA295709VIVA_B_99Blank 13
SA295710VIVA_B_101Blank 13
SA295711VIVA_B_102Blank 13
SA295712VIVA_B_104Blank 13
SA295713VIVA_B_103Blank 13
SA295714VIVA_B_98Blank 13
SA295715VIVA_B_97Blank 13
SA295716VIVA_B_110Blank 14
SA295717VIVA_B_111Blank 14
SA295718VIVA_B_109Blank 14
SA295719VIVA_B_108Blank 14
SA295720VIVA_B_105Blank 14
SA295721VIVA_B_106Blank 14
SA295722VIVA_B_112Blank 14
SA295723VIVA_B_107Blank 14
SA295724VIVA_B_119Blank 15
SA295725VIVA_B_114Blank 15
SA295726VIVA_B_117Blank 15
SA295727VIVA_B_118Blank 15
SA295728VIVA_B_116Blank 15
SA295729VIVA_B_115Blank 15
SA295730VIVA_B_113Blank 15
SA295731VIVA_B_13Blank 2
SA295732VIVA_B_14Blank 2
SA295733VIVA_B_16Blank 2
SA295734VIVA_B_12Blank 2
SA295735VIVA_B_15Blank 2
SA295736VIVA_B_11Blank 2
SA295737VIVA_B_9Blank 2
SA295738VIVA_B_10Blank 2
SA295739VIVA_B_23Blank 3
SA295740VIVA_B_24Blank 3
SA295741VIVA_B_17Blank 3
SA295742VIVA_B_22Blank 3
SA295743VIVA_B_20Blank 3
SA295744VIVA_B_19Blank 3
SA295745VIVA_B_18Blank 3
SA295746VIVA_B_21Blank 3
SA295747VIVA_B_29Blank 4
SA295748VIVA_B_26Blank 4
SA295749VIVA_B_28Blank 4
SA295750VIVA_B_30Blank 4
SA295751VIVA_B_31Blank 4
SA295752VIVA_B_32Blank 4
SA295753VIVA_B_27Blank 4
SA295754VIVA_B_25Blank 4
SA295755VIVA_B_40Blank 5
SA295756VIVA_B_35Blank 5
SA295757VIVA_B_36Blank 5
SA295758VIVA_B_37Blank 5
SA295759VIVA_B_39Blank 5
SA295760VIVA_B_34Blank 5
SA295761VIVA_B_38Blank 5
SA295762VIVA_B_33Blank 5
SA295763VIVA_B_48Blank 6
SA295764VIVA_B_42Blank 6
SA295765VIVA_B_47Blank 6
SA295766VIVA_B_45Blank 6
SA295767VIVA_B_44Blank 6
SA295768VIVA_B_41Blank 6
SA295769VIVA_B_43Blank 6
SA295770VIVA_B_46Blank 6
SA295771VIVA_B_53Blank 7
SA295772VIVA_B_54Blank 7
SA295773VIVA_B_52Blank 7
SA295774VIVA_B_51Blank 7
SA295775VIVA_B_49Blank 7
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Collection:

Collection ID:CO002877
Collection Summary:N/A
Sample Type:Urine
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002893
Treatment Summary:N/A

Sample Preparation:

Sampleprep ID:SP002890
Sampleprep Summary:Study samples were shipped from the Harvard Pilgrim Health Care Institute (Department of Population Medicine) to the NC HHEAR Hub on dry ice. The NC HHEAR Hub thawed and transferred 50 µL of the study samples to a new set of tubes and used them for the analysis. An additional 10 µL was taken from the original study sample and transferred to another tube to make the total study pool for this project, and then distributed with 50 µL per aliquot, used as quality control study pools (QC study pools) throughout the whole analysis. All sample aliquots (50 µL each) and QC study pools (50 µL each) were stored at -80° C until the day of sample preparation. HHEAR Urine Pool 1 (50 µL each), HHEAR Urine Pool 2 (50 µL each), CHEAR reference urine (50 µL each) and NIST urine (SRM 3672) reference material (50 µL each) were provided by the NC HHEAR Hub. LC-MS grade water (50 µL) was used as blanks. All samples were thawed at 4°C overnight before the preparation. Samples, including study samples, study pool samples, HHEAR reference urine, CHEAR reference urine, NIST reference urine, and blanks were mixed with 400 µL methanol containing 500 ng/mL tryptophan-d5 as internal standard and vortexed by a multiple tube vortex mixer for 2 min at 5000 rpm at room temperature. All samples were centrifuged at 16,000 rcf for 10 min at 4°C. The supernatant (350 µL) was transferred into a pre-labeled 2.0 mL Lo-bind Eppendorf tube, dried by a SpeedVac overnight, and stored at -80° C. For immediate analysis, 100 µL of water-methanol solution (95:5, v/v) was used to reconstitute the dried extracts. Samples were thoroughly mixed on a multiple tube vortex mixer for 10 min at 5000 rpm at room temperature and then centrifuged at 4°C for 10 min at 16,000 rcf. The supernatant was transferred to pre-labeled autosampler vials for data acquisition by LC-MS.
Processing Storage Conditions:4℃
Extraction Method:Vortex with methanol containing 500ng/ml tryptophan-d5 as internal standard
Extract Storage:-80℃
Sample Resuspension:Water-Methanol (95:5, v/v)
Sample Spiking:Tryptophan-d5 stock solution at 500 ng/mL

Combined analysis:

Analysis ID AN004521
Analysis type MS
Chromatography type Reversed phase
Chromatography system Thermo Vanquish
Column Waters ACQUITY UPLC HSS T3 (100 x 2.1mm,1.8um)
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive HF-X Orbitrap
Ion Mode POSITIVE
Units Normalized intensity

Chromatography:

Chromatography ID:CH003395
Chromatography Summary:Reversed phase
Instrument Name:Thermo Vanquish
Column Name:Waters ACQUITY UPLC HSS T3 (100 x 2.1mm,1.8um)
Column Pressure:6000-10000 psi
Column Temperature:50 ℃
Flow Gradient:Time(min) Flow Rate %A %B Curve 1. 0 0.4 99.0 1.0 5 2. 1.00 0.4 99.0 1.0 5 3. 16.00 0.4 1.0 99.0 5 4. 19.00 0.4 1.0 99.0 5 5. 19.50 0.4 99.0 1.0 5 6. 22.00 0.4 99.0 1.0 5
Flow Rate:0.4 mL/min
Injection Temperature:8 ℃
Internal Standard:Tryptophan-d5
Solvent A:100% water; 0.1% formic acid
Solvent B:100% methanol; 0.1% formic acid
Analytical Time:22 min
Weak Wash Solvent Name:10% methanol/90% water; 0.1% formic acid
Strong Wash Solvent Name:75% 2-Propanol/25% Water; 0.1% formic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS004268
Analysis ID:AN004521
Instrument Name:Thermo Q Exactive HF-X Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Instrument: Thermo Q Exactive HFx Software: Xcalibur 4.1.31.9 for data acquisition; Progenesis QI 2.4 for data preprocessing
Ion Mode:POSITIVE
Capillary Temperature:320 °C
Capillary Voltage:3.5 KV
Collision Energy:20-45, ramp
Collision Gas:N2
Fragmentation Method:CID
Ion Spray Voltage:3.5kV
Ionization:ES+
Mass Accuracy:5 ppm
Dataformat:Profile
Desolvation Gas Flow:55
Desolvation Temperature:400 ℃
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