Summary of Study ST002940

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 PR001829. The data can be accessed directly via it's Project DOI: 10.21228/M8972V 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 IDST002940
Study TitleEnvironmental Exposure in the New Hampshire Birth Cohort Study
Study TypeProspective Cohort Study
Study SummaryThe New Hampshire Birth Cohort Study is a prospective cohort study of rural pregnant women and their children with the aim of investigating the effects of environmental exposures on birth outcomes and child health and development. Please contact Margaret Karagas at margaret.r.karagas@dartmouth.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. The New Hampshire Birth Cohort Study is an ECHO cohort project 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 RTI Children's Health Exposure Analysis Resource (CHEAR) Exposure Assessment Hub: Research Triangle Institute: Fennell T, UNC Untargeted Analysis Core, RTI CHEAR Hub: Sumner S; U2CES026544 Children's Health Exposure Analysis Resource Coordinating Center: Westat, Inc., Rockville, Maryland: O’Brien B; U24 ES026539
Institute
Dartmouth College
DepartmentDepartment of Epidemiology
LaboratoryKaragas Lab
Last NameKaragas
First NameMargaret
AddressGeisel School of Medicine at Dartmouth, 1 Medical Center Drive, Williamson Translational Research Building, 7th Floor, Lebanon, NH 03756
Emailmargaret.r.karagas@dartmouth.edu
Phone(603) 653-9010
Submit Date2023-10-19
Total Subjects259
Study CommentsECHO UG3 Project 105
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Chear StudyYes
Analysis Type DetailLC-MS
Release Date2024-10-21
Release Version1
Margaret Karagas Margaret Karagas
https://dx.doi.org/10.21228/M8972V
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001829
Project DOI:doi: 10.21228/M8972V
Project Title:Environmental Exposure in the New Hampshire Birth Cohort Study
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 plasma provided by the New Hampshire Birth Cohort Study.
Institute:RTI CHEAR Exposure Assessment Hub
Department:UNC-CH Untargeted Core
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 New Hampshire Birth Cohort Study is an ECHO cohort project 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 RTI Children's Health Exposure Analysis Resource (CHEAR) Exposure Assessment Hub: Research Triangle Institute: Fennell T, UNC Untargeted Analysis Core, RTI CHEAR Hub: Sumner S; U2CES026544 Children's Health Exposure Analysis Resource Coordinating Center: Westat, Inc., Rockville, Maryland: O’Brien B; (U24 ES026539), and the Human Health Exposure Analysis Data Center: Icahn School of Medicine at Mount Sinai: Teitelbaum S (U2CES026555)

Subject:

Subject ID:SU003053
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
SA319682CP_8CHEAR Batch_1a
SA319683CP_9CHEAR Batch_1a
SA319684CP_7CHEAR Batch_1a
SA319685CP_2CHEAR Batch_1a
SA319686CP_6CHEAR Batch_1a
SA319687CP_3CHEAR Batch_1a
SA319688CP_4CHEAR Batch_1a
SA319689CP_5CHEAR Batch_1a
SA319690CP_12CHEAR Batch_1b
SA319691CP_10CHEAR Batch_1b
SA319692CP_11CHEAR Batch_1b
SA319693B2_CP_4_1CHEAR Batch_2
SA319694B2_CP_3_2CHEAR Batch_2
SA319695B2_CP_2_1CHEAR Batch_2
SA319696B2_CP_2_2CHEAR Batch_2
SA319697B2_CP_3_1CHEAR Batch_2
SA319698B2_CP_9_2CHEAR Batch_2
SA319699B2_CP_9_1CHEAR Batch_2
SA319700B2_CP_7_1CHEAR Batch_2
SA319701B2_CP_4_2CHEAR Batch_2
SA319702B2_CP_7_2CHEAR Batch_2
SA319703B2_CP_8_1CHEAR Batch_2
SA319704B2_CP_8_2CHEAR Batch_2
SA319705B3_CP_7_3CHEAR Batch_3
SA319706B3_CP_6_4CHEAR Batch_3
SA319707B3_CP_9_3CHEAR Batch_3
SA319708B3_CP_8_4CHEAR Batch_3
SA319709B3_CP_9_4CHEAR Batch_3
SA319710B3_CP_8_3CHEAR Batch_3
SA319711S_896Maternal Batch_1a
SA319712S_897Maternal Batch_1a
SA319713S_898Maternal Batch_1a
SA319714S_902Maternal Batch_1a
SA319715S_901Maternal Batch_1a
SA319716S_895Maternal Batch_1a
SA319717S_894Maternal Batch_1a
SA319718S_887Maternal Batch_1a
SA319719S_888Maternal Batch_1a
SA319720S_891Maternal Batch_1a
SA319721S_906Maternal Batch_1a
SA319722S_892Maternal Batch_1a
SA319723S_919Maternal Batch_1a
SA319724S_918Maternal Batch_1a
SA319725S_917Maternal Batch_1a
SA319726S_920Maternal Batch_1a
SA319727S_921Maternal Batch_1a
SA319728S_886Maternal Batch_1a
SA319729S_916Maternal Batch_1a
SA319730S_915Maternal Batch_1a
SA319731S_909Maternal Batch_1a
SA319732S_910Maternal Batch_1a
SA319733S_912Maternal Batch_1a
SA319734S_913Maternal Batch_1a
SA319735S_907Maternal Batch_1a
SA319736S_882Maternal Batch_1a
SA319737S_844Maternal Batch_1a
SA319738S_842Maternal Batch_1a
SA319739S_841Maternal Batch_1a
SA319740S_839Maternal Batch_1a
SA319741S_846Maternal Batch_1a
SA319742S_847Maternal Batch_1a
SA319743S_852Maternal Batch_1a
SA319744S_851Maternal Batch_1a
SA319745S_850Maternal Batch_1a
SA319746S_848Maternal Batch_1a
SA319747S_838Maternal Batch_1a
SA319748S_837Maternal Batch_1a
SA319749S_823Maternal Batch_1a
SA319750S_822Maternal Batch_1a
SA319751S_821Maternal Batch_1a
SA319752S_820Maternal Batch_1a
SA319753S_827Maternal Batch_1a
SA319754S_828Maternal Batch_1a
SA319755S_834Maternal Batch_1a
SA319756S_832Maternal Batch_1a
SA319757S_831Maternal Batch_1a
SA319758S_829Maternal Batch_1a
SA319759S_885Maternal Batch_1a
SA319760S_853Maternal Batch_1a
SA319761S_871Maternal Batch_1a
SA319762S_870Maternal Batch_1a
SA319763S_869Maternal Batch_1a
SA319764S_854Maternal Batch_1a
SA319765S_872Maternal Batch_1a
SA319766S_873Maternal Batch_1a
SA319767S_883Maternal Batch_1a
SA319768S_880Maternal Batch_1a
SA319769S_875Maternal Batch_1a
SA319770S_874Maternal Batch_1a
SA319771S_867Maternal Batch_1a
SA319772S_868Maternal Batch_1a
SA319773S_866Maternal Batch_1a
SA319774S_858Maternal Batch_1a
SA319775S_857Maternal Batch_1a
SA319776S_856Maternal Batch_1a
SA319777S_860Maternal Batch_1a
SA319778S_859Maternal Batch_1a
SA319779S_865Maternal Batch_1a
SA319780S_861Maternal Batch_1a
SA319781S_864Maternal Batch_1a
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Collection:

Collection ID:CO003046
Collection Summary:N/A
Sample Type:Blood (plasma)
Storage Conditions:-80℃

Treatment:

Treatment ID:TR003062
Treatment Summary:N/A

Sample Preparation:

Sampleprep ID:SP003059
Sampleprep Summary:Study samples were shipped from Karagas Lab, Dartmouth College, NH 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. All sample aliquots (50 µL each) were stored at -80° C until the day of sample preparation. CHEAR reference plasma (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, CHEAR reference plasma, 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 AN004825
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:CH003645
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:MS004571
Analysis ID:AN004825
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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