Summary of Study ST002766

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 PR001724. The data can be accessed directly via it's Project DOI: 10.21228/M8VM7H 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 IDST002766
Study TitleThe ECHO Cohort Exposome: First Steps using HHEAR Analysis – An Opportunity for ALL ECHO Cohorts to Contribute Type A Samples – Untargeted Analysis (GAPPS Cohort)
Study TypeProspective Cohort Study
Study SummaryThe GAPPS study was designed to establish a large biorepository during the pregnancy and early postnatal period that could be used for research on reducing adverse birth outcomes. Pregnant women were eligible if they were older than 18 years of age, English-speaking and had plans to deliver at the hospital in which they enrolled. Eligibility for ECHO-PATHWAYS included the following: recruitment at a Washington study site, consent to contact for future research, at least one pregnancy urine sample available, pregnancy questionnaire data collected and child age between 4–8 years old. GAPPS-PW has two study sites, Seattle, Washington, and Yakima, Washington. GAPPS is conducting two middle childhood visits – one at age 5-6 years and another at 8-9 years. The research is supported by NIH (UG3/UH3OD023271, P30ES007033, UL1 TR002319). This research was conducted using specimens and data collected and stored on behalf of the Global Alliance to Prevent Prematurity and Stillbirth (GAPPS) Repository. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. GAPPS 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 Citation: LeWinn KZ, Karr CJ, Hazlehurst M, Carroll K, Loftus C, Nguyen R, Barrett E, Swan SH, Szpiro AA, Paquette A, Moore P, Spalt E, Younglove L, Sullivan A, Colburn T, Byington N, Sims Taylor L, Moe S, Wang S, Cordeiro A, Mattias A, Powell J, Johnson T, Norona-Zhou A, Mason A, Bush NR, Sathyanarayana S. Cohort profile: the ECHO prenatal and early childhood pathways to health consortium (ECHO-PATHWAYS). BMJ Open. 2022 Oct 21;12(10):e064288. doi: 10.1136/bmjopen-2022-064288. PMID: 36270755; PMCID: PMC9594508.
Institute
University of Washington
DepartmentEnvironmental and Occupational Health Sciences
Last NameSathyanarayana
First NameSheela
Address1410 NE Campus Parkway Seattle, WAS 98195
Emailsheela.sathyanarayana@seattlechildrens.org
Phone(206) 884-7591
Submit Date2023-06-29
Total Subjects323
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 Date2024-07-01
Release Version1
Sheela Sathyanarayana Sheela Sathyanarayana
https://dx.doi.org/10.21228/M8VM7H
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001724
Project DOI:doi: 10.21228/M8VM7H
Project Title:The ECHO Cohort Exposome: First Steps using HHEAR Analysis – An Opportunity for ALL ECHO Cohorts to Contribute Type A Samples – Untargeted Analysis (GAPPS Cohort)
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. The GAPPS ECHO Cohort is supported by the National Institutes of Health NIH (UG3/UH3OD023271, P30ES007033) and 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:SU002873
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
SA292152GAPPS_B_8Blank 1
SA292153GAPPS_B_1Blank 1
SA292154GAPPS_B_7Blank 1
SA292155GAPPS_B_6Blank 1
SA292156GAPPS_B_2Blank 1
SA292157GAPPS_B_4Blank 1
SA292158GAPPS_B_3Blank 1
SA292159GAPPS_B_5Blank 1
SA292160GAPPS_B_15Blank 2
SA292161GAPPS_B_16Blank 2
SA292162GAPPS_B_14Blank 2
SA292163GAPPS_B_10Blank 2
SA292164GAPPS_B_9Blank 2
SA292165GAPPS_B_13Blank 2
SA292166GAPPS_B_11Blank 2
SA292167GAPPS_B_12Blank 2
SA292168GAPPS_B_23Blank 3
SA292169GAPPS_B_22Blank 3
SA292170GAPPS_B_24Blank 3
SA292171GAPPS_B_20Blank 3
SA292172GAPPS_B_21Blank 3
SA292173GAPPS_B_19Blank 3
SA292174GAPPS_B_18Blank 3
SA292175GAPPS_B_17Blank 3
SA292176GAPPS_B_31Blank 4
SA292177GAPPS_B_33Blank 4
SA292178GAPPS_B_32Blank 4
SA292179GAPPS_B_30Blank 4
SA292180GAPPS_B_29Blank 4
SA292181GAPPS_B_25Blank 4
SA292182GAPPS_B_26Blank 4
SA292183GAPPS_B_27Blank 4
SA292184GAPPS_B_28Blank 4
SA292185GAPPS_CHEAR_U_4CHEAR 1
SA292186GAPPS_CHEAR_U_1CHEAR 1
SA292187GAPPS_CHEAR_U_3CHEAR 1
SA292188GAPPS_CHEAR_U_2CHEAR 1
SA292189GAPPS_CHEAR_U_7CHEAR 2
SA292190GAPPS_CHEAR_U_8CHEAR 2
SA292191GAPPS_CHEAR_U_6CHEAR 2
SA292192GAPPS_CHEAR_U_5CHEAR 2
SA292193GAPPS_CHEAR_U_12CHEAR 3
SA292194GAPPS_CHEAR_U_11CHEAR 3
SA292195GAPPS_CHEAR_U_9CHEAR 3
SA292196GAPPS_CHEAR_U_10CHEAR 3
SA292197GAPPS_CHEAR_U_17CHEAR 4
SA292198GAPPS_CHEAR_U_16CHEAR 4
SA292199GAPPS_CHEAR_U_13CHEAR 4
SA292200GAPPS_CHEAR_U_14CHEAR 4
SA292201GAPPS_CHEAR_U_15CHEAR 4
SA292202GAPPS_S_322Field blank 4
SA292203GAPPS_S_323Field blank 4
SA292204GAPPS_S_324Field blank 4
SA292205GAPPS_S_325Field blank 4
SA292206GAPPS_S_321Field blank 4
SA292207GAPPS_S_329Field blank 4
SA292208GAPPS_HHEAR_U1_3HHEAR U1 1
SA292209GAPPS_HHEAR_U1_2HHEAR U1 1
SA292210GAPPS_HHEAR_U1_1HHEAR U1 1
SA292211GAPPS_HHEAR_U1_4HHEAR U1 1
SA292212GAPPS_HHEAR_U1_5HHEAR U1 2
SA292213GAPPS_HHEAR_U1_7HHEAR U1 2
SA292214GAPPS_HHEAR_U1_6HHEAR U1 2
SA292215GAPPS_HHEAR_U1_8HHEAR U1 2
SA292216GAPPS_HHEAR_U1_11HHEAR U1 3
SA292217GAPPS_HHEAR_U1_12HHEAR U1 3
SA292218GAPPS_HHEAR_U1_9HHEAR U1 3
SA292219GAPPS_HHEAR_U1_10HHEAR U1 3
SA292220GAPPS_HHEAR_U1_15HHEAR U1 4
SA292221GAPPS_HHEAR_U1_13HHEAR U1 4
SA292222GAPPS_HHEAR_U1_14HHEAR U1 4
SA292223GAPPS_HHEAR_U1_16HHEAR U1 4
SA292224GAPPS_HHEAR_U2_2HHEAR U2 1
SA292225GAPPS_HHEAR_U2_3HHEAR U2 1
SA292226GAPPS_HHEAR_U2_4HHEAR U2 1
SA292227GAPPS_HHEAR_U2_1HHEAR U2 1
SA292228GAPPS_HHEAR_U2_8HHEAR U2 2
SA292229GAPPS_HHEAR_U2_5HHEAR U2 2
SA292230GAPPS_HHEAR_U2_6HHEAR U2 2
SA292231GAPPS_HHEAR_U2_7HHEAR U2 2
SA292232GAPPS_HHEAR_U2_12HHEAR U2 3
SA292233GAPPS_HHEAR_U2_11HHEAR U2 3
SA292234GAPPS_HHEAR_U2_9HHEAR U2 3
SA292235GAPPS_HHEAR_U2_10HHEAR U2 3
SA292236GAPPS_HHEAR_U2_14HHEAR U2 4
SA292237GAPPS_HHEAR_U2_13HHEAR U2 4
SA292238GAPPS_HHEAR_U2_17HHEAR U2 4
SA292239GAPPS_HHEAR_U2_15HHEAR U2 4
SA292240GAPPS_HHEAR_U2_16HHEAR U2 4
SA292241GAPPS_NIST_3672_2NIST 1
SA292242GAPPS_NIST_3672_3NIST 1
SA292243GAPPS_NIST_3672_1NIST 1
SA292244GAPPS_NIST_3672_4NIST 2
SA292245GAPPS_NIST_3672_5NIST 2
SA292246GAPPS_NIST_3672_6NIST 2
SA292247GAPPS_NIST_3672_9NIST 3
SA292248GAPPS_NIST_3672_8NIST 3
SA292249GAPPS_NIST_3672_7NIST 3
SA292250GAPPS_NIST_3672_10NIST 4
SA292251GAPPS_NIST_3672_11NIST 4
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Collection:

Collection ID:CO002866
Collection Summary:N/A
Sample Type:Urine
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002882
Treatment Summary:N/A

Sample Preparation:

Sampleprep ID:SP002879
Sampleprep Summary:Study samples were shipped from the University of Washington (Environmental and Occupational Health Sciences) 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 AN004502
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 Intensities

Chromatography:

Chromatography ID:CH003382
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:MS004249
Analysis ID:AN004502
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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