Summary of Study ST002821

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 PR001763. The data can be accessed directly via it's Project DOI: 10.21228/M8TH9X 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 IDST002821
Study TitleThe ECHO Cohort Exposome: First Steps using HHEAR Analysis – An Opportunity for ALL ECHO Cohorts to Contribute Type A Samples – Untargeted Analysis (PRISM Cohort)
Study TypeProspective Cohort Study
Study SummaryThe PRogramming of Intergenerational Stress Mechanisms (PRISM) study is a prospective pregnancy cohort of mother-child dyads originally designed to examine the effects of prenatal and early life psychosocial and environmental exposures on child developmental outcomes. Pregnant women receiving prenatal care at health centers in the Northeastern United States were recruited at 23.6 + 9.4 weeks’ gestation. Women were eligible if they were English or Spanish speaking, 18 years or older, did not have definite plans to move out of the area within a year after consent, were planning to give birth at the hospital affiliated with the recruitment site, had a singleton pregnancy, endorsed drinking <7 alcoholic drinks per week prior to pregnancy recognition and none following pregnancy recognition, had an HIV negative status, and delivered an infant without congenital abnormalities that would impede ongoing participation. Written informed consent was obtained from women in their preferred language. In 2016, funding was obtained to support ongoing prenatal recruitment and follow-up as part of the Environmental influences on Child Health Outcomes (ECHO) program through UH3OD023337. Please contact Rosalind Wright, MD MPH at rosalind.wright@mssm.edu for 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. PRISM 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
Mount Sinai Kravis Children's Hospital
DepartmentPediatrics
Last NameWright
First NameRosalind
Address1468 Madison Avenue New York, NY 10029
Emailrosalind.wright@mssm.edu
Phone(212) 241-5287
Submit Date2023-08-11
Total Subjects638
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 Date2024-08-14
Release Version1
Rosalind Wright Rosalind Wright
https://dx.doi.org/10.21228/M8TH9X
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001763
Project DOI:doi: 10.21228/M8TH9X
Project Title:The ECHO Cohort Exposome: First Steps using HHEAR Analysis – An Opportunity for ALL ECHO Cohorts to Contribute Type A Samples – Untargeted Analysis (PRISM 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 PRISM ECHO Cohort 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

Subject:

Subject ID:SU002930
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Sample Type Batch
SA304684PRISM_B_8Blank 1
SA304685PRISM_B_1Blank 1
SA304686PRISM_B_7Blank 1
SA304687PRISM_B_6Blank 1
SA304688PRISM_B_2Blank 1
SA304689PRISM_B_4Blank 1
SA304690PRISM_B_3Blank 1
SA304691PRISM_B_5Blank 1
SA304692PRISM_B_15Blank 2
SA304693PRISM_B_16Blank 2
SA304694PRISM_B_13Blank 2
SA304695PRISM_B_14Blank 2
SA304696PRISM_B_10Blank 2
SA304697PRISM_B_11Blank 2
SA304698PRISM_B_9Blank 2
SA304699PRISM_B_12Blank 2
SA304700PRISM_B_23Blank 3
SA304701PRISM_B_24Blank 3
SA304702PRISM_B_22Blank 3
SA304703PRISM_B_21Blank 3
SA304704PRISM_B_17Blank 3
SA304705PRISM_B_19Blank 3
SA304706PRISM_B_18Blank 3
SA304707PRISM_B_20Blank 3
SA304708PRISM_B_31Blank 4
SA304709PRISM_B_32Blank 4
SA304710PRISM_B_30Blank 4
SA304711PRISM_B_26Blank 4
SA304712PRISM_B_29Blank 4
SA304713PRISM_B_27Blank 4
SA304714PRISM_B_25Blank 4
SA304715PRISM_B_28Blank 4
SA304716PRISM_B_39Blank 5
SA304717PRISM_B_40Blank 5
SA304718PRISM_B_38Blank 5
SA304719PRISM_B_37Blank 5
SA304720PRISM_B_33Blank 5
SA304721PRISM_B_35Blank 5
SA304722PRISM_B_34Blank 5
SA304723PRISM_B_36Blank 5
SA304724PRISM_B_47Blank 6
SA304725PRISM_B_48Blank 6
SA304726PRISM_B_46Blank 6
SA304727PRISM_B_41Blank 6
SA304728PRISM_B_42Blank 6
SA304729PRISM_B_45Blank 6
SA304730PRISM_B_43Blank 6
SA304731PRISM_B_44Blank 6
SA304732PRISM_B_54Blank 7
SA304733PRISM_B_53Blank 7
SA304734PRISM_B_56Blank 7
SA304735PRISM_B_55Blank 7
SA304736PRISM_B_52Blank 7
SA304737PRISM_B_51Blank 7
SA304738PRISM_B_50Blank 7
SA304739PRISM_B_49Blank 7
SA304740PRISM_B_63Blank 8
SA304741PRISM_B_64Blank 8
SA304742PRISM_B_62Blank 8
SA304743PRISM_B_60Blank 8
SA304744PRISM_B_57Blank 8
SA304745PRISM_B_58Blank 8
SA304746PRISM_B_59Blank 8
SA304747PRISM_B_61Blank 8
SA304748PRISM_CHEAR_U_3CHEAR 1
SA304749PRISM_CHEAR_U_4CHEAR 1
SA304750PRISM_CHEAR_U_1CHEAR 1
SA304751PRISM_CHEAR_U_2CHEAR 1
SA304752PRISM_CHEAR_U_8CHEAR 2
SA304753PRISM_CHEAR_U_7CHEAR 2
SA304754PRISM_CHEAR_U_5CHEAR 2
SA304755PRISM_CHEAR_U_6CHEAR 2
SA304756PRISM_CHEAR_U_12CHEAR 3
SA304757PRISM_CHEAR_U_11CHEAR 3
SA304758PRISM_CHEAR_U_10CHEAR 3
SA304759PRISM_CHEAR_U_9CHEAR 3
SA304760PRISM_CHEAR_U_16CHEAR 4
SA304761PRISM_CHEAR_U_15CHEAR 4
SA304762PRISM_CHEAR_U_13CHEAR 4
SA304763PRISM_CHEAR_U_14CHEAR 4
SA304764PRISM_CHEAR_U_20CHEAR 5
SA304765PRISM_CHEAR_U_18CHEAR 5
SA304766PRISM_CHEAR_U_17CHEAR 5
SA304767PRISM_CHEAR_U_19CHEAR 5
SA304768PRISM_CHEAR_U_24CHEAR 6
SA304769PRISM_CHEAR_U_23CHEAR 6
SA304770PRISM_CHEAR_U_21CHEAR 6
SA304771PRISM_CHEAR_U_22CHEAR 6
SA304772PRISM_CHEAR_U_28CHEAR 7
SA304773PRISM_CHEAR_U_27CHEAR 7
SA304774PRISM_CHEAR_U_26CHEAR 7
SA304775PRISM_CHEAR_U_25CHEAR 7
SA304776PRISM_CHEAR_U_32CHEAR 8
SA304777PRISM_CHEAR_U_31CHEAR 8
SA304778PRISM_CHEAR_U_29CHEAR 8
SA304779PRISM_CHEAR_U_30CHEAR 8
SA304780PRISM_HHEAR_U1_4HHEAR U1 1
SA304781PRISM_HHEAR_U1_1HHEAR U1 1
SA304782PRISM_HHEAR_U1_3HHEAR U1 1
SA304783PRISM_HHEAR_U1_2HHEAR U1 1
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Collection:

Collection ID:CO002923
Collection Summary:N/A
Sample Type:Urine
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002939
Treatment Summary:N/A

Sample Preparation:

Sampleprep ID:SP002936
Sampleprep Summary:Study samples were shipped from the Mount Sinai Kravis Children's Hospital, NY 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 AN004598
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:CH003458
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:MS004344
Analysis ID:AN004598
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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