Summary of Study ST002559

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 PR001651. The data can be accessed directly via it's Project DOI: 10.21228/M8971G 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 IDST002559
Study TitleThe ECHO Cohort Exposome: First Steps using HHEAR Analysis – An Opportunity for ALL ECHO Cohorts to Contribute Type A Samples – Untargeted Analysis (VCSIP Cohort)
Study TypeProspective Cohort Study
Study SummaryMaternal smoking during pregnancy negatively effects fetal lung development and causes lifelong decreases in offspring pulmonary function and offspring respiratory health including increased risk of childhood asthma development. The VCSIP cohort was created from 2 RCTs to determine if vitamin C supplementation to pregnant smokers could ameliorate some of the negative effects of maternal smoking during pregnancy on offspring lung health (JAMA 311:2074-2082, 2014; JAMA Pediatr 177:16-24, 2023). Both pre- and postnatal tobacco exposures have been carefully monitored and extensive respiratory phenotyping on the offspring have been performed. Please contact Cindy McEvoy at Mcevoyc@ohsu.edu for questions related to 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. VCSIP 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
Oregon Health and Science University
DepartmentDivision of Neuroscience
Last NameSpindel
First NameEliot
Address3181 SW Sam Jackson Park Road Portland, OR 97239-3098
Emailspindele@ohsu.edu
Phone503-346-5524
Submit Date2023-04-13
Total Subjects200
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 Date2024-04-14
Release Version1
Eliot Spindel Eliot Spindel
https://dx.doi.org/10.21228/M8971G
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001651
Project DOI:doi: 10.21228/M8971G
Project Title:The ECHO Cohort Exposome: First Steps using HHEAR Analysis – An Opportunity for ALL ECHO Cohorts to Contribute Type A Samples – Untargeted Analysis (VCSIP 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, UNC-CH, 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 VCSIP 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:SU002660
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 Analysis Order
SA257342VCSIP_B_8Blank 1 108
SA257343VCSIP_B_1Blank 1 12
SA257344VCSIP_B_2Blank 1 26
SA257345VCSIP_B_3Blank 1 39
SA257346VCSIP_B_4Blank 1 53
SA257347VCSIP_B_5Blank 1 67
SA257348VCSIP_B_6Blank 1 81
SA257349VCSIP_B_7Blank 1 94
SA257350VCSIP_B_9Blank 2 123
SA257351VCSIP_B_10Blank 2 137
SA257352VCSIP_B_11Blank 2 150
SA257353VCSIP_B_12Blank 2 164
SA257354VCSIP_B_13Blank 2 178
SA257355VCSIP_B_14Blank 2 192
SA257356VCSIP_B_15Blank 2 205
SA257357VCSIP_B_16Blank 2 219
SA257358VCSIP_B_17Blank 3 234
SA257359VCSIP_B_18Blank 3 248
SA257360VCSIP_B_19Blank 3 262
SA257361VCSIP_B_20Blank 3 276
SA257362VCSIP_CHEAR_U_1CHEAR Urine Pool 1 14
SA257363VCSIP_CHEAR_U_2CHEAR Urine Pool 1 41
SA257364VCSIP_CHEAR_U_3CHEAR Urine Pool 1 69
SA257365VCSIP_CHEAR_U_4CHEAR Urine Pool 1 96
SA257366VCSIP_CHEAR_U_5CHEAR Urine Pool 2 125
SA257367VCSIP_CHEAR_U_6CHEAR Urine Pool 2 152
SA257368VCSIP_CHEAR_U_7CHEAR Urine Pool 2 180
SA257369VCSIP_CHEAR_U_8CHEAR Urine Pool 2 207
SA257370VCSIP_CHEAR_U_9CHEAR Urine Pool 3 236
SA257371VCSIP_CHEAR_U_10CHEAR Urine Pool 3 264
SA257372VCSIP_HHEAR_U1_1HHEAR Urine Pool 1 (HHEAR_U1_20) 1 13
SA257373VCSIP_HHEAR_U1_2HHEAR Urine Pool 1 (HHEAR_U1_20) 1 40
SA257374VCSIP_HHEAR_U1_3HHEAR Urine Pool 1 (HHEAR_U1_20) 1 68
SA257375VCSIP_HHEAR_U1_4HHEAR Urine Pool 1 (HHEAR_U1_20) 1 95
SA257376VCSIP_HHEAR_U1_5HHEAR Urine Pool 1 (HHEAR_U1_20) 2 124
SA257377VCSIP_HHEAR_U1_6HHEAR Urine Pool 1 (HHEAR_U1_20) 2 151
SA257378VCSIP_HHEAR_U1_7HHEAR Urine Pool 1 (HHEAR_U1_20) 2 179
SA257379VCSIP_HHEAR_U1_8HHEAR Urine Pool 1 (HHEAR_U1_20) 2 206
SA257380VCSIP_HHEAR_U1_9HHEAR Urine Pool 1 (HHEAR_U1_20) 3 235
SA257381VCSIP_HHEAR_U1_10HHEAR Urine Pool 1 (HHEAR_U1_20) 3 263
SA257382VCSIP_HHEAR_U2_4HHEAR Urine Pool 2 (HHEAR_U2_50) 1 109
SA257383VCSIP_HHEAR_U2_1HHEAR Urine Pool 2 (HHEAR_U2_50) 1 27
SA257384VCSIP_HHEAR_U2_2HHEAR Urine Pool 2 (HHEAR_U2_50) 1 54
SA257385VCSIP_HHEAR_U2_3HHEAR Urine Pool 2 (HHEAR_U2_50) 1 82
SA257386VCSIP_HHEAR_U2_5HHEAR Urine Pool 2 (HHEAR_U2_50) 2 138
SA257387VCSIP_HHEAR_U2_6HHEAR Urine Pool 2 (HHEAR_U2_50) 2 165
SA257388VCSIP_HHEAR_U2_7HHEAR Urine Pool 2 (HHEAR_U2_50) 2 193
SA257389VCSIP_HHEAR_U2_8HHEAR Urine Pool 2 (HHEAR_U2_50) 2 220
SA257390VCSIP_HHEAR_U2_9HHEAR Urine Pool 2 (HHEAR_U2_50) 3 249
SA257391VCSIP_HHEAR_U2_10HHEAR Urine Pool 2 (HHEAR_U2_50) 3 277
SA257392VCSIP_NIST_3672_1NIST Urine Pool 3672 1 1
SA257393VCSIP_NIST_3672_3NIST Urine Pool 3672 1 111
SA257394VCSIP_NIST_3672_2NIST Urine Pool 3672 1 56
SA257395VCSIP_NIST_3672_4NIST Urine Pool 3672 2 112
SA257396VCSIP_NIST_3672_5NIST Urine Pool 3672 2 167
SA257397VCSIP_NIST_3672_6NIST Urine Pool 3672 2 222
SA257398VCSIP_NIST_3672_7NIST Urine Pool 3672 3 223
SA257399VCSIP_NIST_3672_8NIST Urine Pool 3672 3 251
SA257400VCSIP_NIST_3672_9NIST Urine Pool 3672 3 279
SA257401VCSIP_SP_8Study Pool 1 110
SA257402VCSIP_SP_1Study Pool 1 15
SA257403VCSIP_SP_2Study Pool 1 28
SA257404VCSIP_SP_3Study Pool 1 42
SA257405VCSIP_SP_4Study Pool 1 55
SA257406VCSIP_SP_5Study Pool 1 70
SA257407VCSIP_SP_6Study Pool 1 83
SA257408VCSIP_SP_7Study Pool 1 97
SA257409VCSIP_SP_9Study Pool 2 126
SA257410VCSIP_SP_10Study Pool 2 139
SA257411VCSIP_SP_11Study Pool 2 153
SA257412VCSIP_SP_12Study Pool 2 166
SA257413VCSIP_SP_13Study Pool 2 181
SA257414VCSIP_SP_14Study Pool 2 194
SA257415VCSIP_SP_15Study Pool 2 208
SA257416VCSIP_SP_16Study Pool 2 221
SA257417VCSIP_SP_17Study Pool 3 237
SA257418VCSIP_SP_18Study Pool 3 250
SA257419VCSIP_SP_19Study Pool 3 265
SA257420VCSIP_SP_20Study Pool 3 278
SA257421VCSIP_S_9Study Sample 1 10
SA257422VCSIP_S_73Study Sample 1 100
SA257423VCSIP_S_74Study Sample 1 101
SA257424VCSIP_S_75Study Sample 1 102
SA257425VCSIP_S_76Study Sample 1 103
SA257426VCSIP_S_77Study Sample 1 104
SA257427VCSIP_S_78Study Sample 1 105
SA257428VCSIP_S_79Study Sample 1 106
SA257429VCSIP_S_80Study Sample 1 107
SA257430VCSIP_S_10Study Sample 1 11
SA257431VCSIP_S_11Study Sample 1 16
SA257432VCSIP_S_12Study Sample 1 17
SA257433VCSIP_S_13Study Sample 1 18
SA257434VCSIP_S_14Study Sample 1 19
SA257435VCSIP_S_1Study Sample 1 2
SA257436VCSIP_S_15Study Sample 1 20
SA257437VCSIP_S_16Study Sample 1 21
SA257438VCSIP_S_17Study Sample 1 22
SA257439VCSIP_S_18Study Sample 1 23
SA257440VCSIP_S_19Study Sample 1 24
SA257441VCSIP_S_20Study Sample 1 25
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Collection:

Collection ID:CO002653
Collection Summary:N/A
Sample Type:Urine
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002672
Treatment Summary:NA

Sample Preparation:

Sampleprep ID:SP002666
Sampleprep Summary:Study samples were shipped from the Oregon Health and Sciences University 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 AN004218
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 m/z

Chromatography:

Chromatography ID:CH003128
Chromatography Summary:Reverse 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:8oC
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:MS003965
Analysis ID:AN004218
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
Dry Gas Flow:55
Dry Gas Temp:400°C
Fragmentation Method:CID
Ion Spray Voltage:3.5kV
Ionization:ES+
Mass Accuracy:5 ppm
Dataformat:Profile
Desolvation Gas Flow:55
Desolvation Temperature:400 oC
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