Summary of study ST000051

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 PR000049. The data can be accessed directly via it's Project DOI: 10.21228/M8W88R This work is supported by NIH grant, U2C- DK119886.

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Study IDST000051
Study TitleFetal metabolomic signature of exposure to iAs during pregnancy
Study TypeMetabolomics
Study SummaryThis metabolomics pilot study was aimed to identify a fetal metabolomic signature of exposure to iAs during pregnancy. Fetal cord blood serum was collected immediately after delivery from a saline cleaned umbilical cord using an anticoagulant-free vacutainer tube, after clot formation the tube was centrifuged at 1200 rpm and the serum was collected and stored at -70°C. A subset of 50 cord serum samples were selected from the larger BEAR cohort to represent a wide range of iAs exposure as determined by iAs in drinking water (DW-iAs). The exposure during pregnancy was confirmed using U-tAs. A total of 50 cord blood serum samples were used in the metabolomics analysis The samples included 25 newborns with lower maternal iAs exposure levels (DW < 25?g As/L, mean U-tAs=16 ?g/L) and 25 newborns with higher maternal iAs exposure levels (DW> 25?g As/L, mean U-tAs =107 ?g/L).
Institute
University of North Carolina
DepartmentSystems and Translational Sciences
LaboratorySumner Lab
Last NameSumner
First NameSusan
AddressEastern Regional Comprehensive Metabolomics Resource Core, UNC Nutrition Research Institute, 500 Laureate Way, Kannapolis, NC, 28081
Emailsusan_sumner @unc.edu
Phone704-250-5066
Submit Date2014-04-30
Num Groups2
Total Subjects50
Raw Data AvailableYes
Raw Data File Type(s)uxnmr.par, .txt, binary files under dir pdata
Uploaded File Size31 M
Analysis Type DetailNMR
Release Date2018-08-27
Release Version1
Susan Sumner Susan Sumner
https://dx.doi.org/10.21228/M8W88R
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000049
Project DOI:doi: 10.21228/M8W88R
Project Title:Biomarkers of Exposure to ARsenic (BEAR) study
Project Type:Environmental exposure
Project Summary:The BEAR study has been established to assess the health effects associated with prenatal arsenic exposure during neonatal and early life. The study area is in Gómez Palacio, Durango, Mexico where women are exposed to levels of iAs in drinking water up to 236.0 ?g As/L.
Institute:University of North Carolina at Chapel Hill
Department:School of Public Health
Laboratory:Rebecca Fry Laboratory
Last Name:Fry
First Name:Rebecca
Address:1213 Michael Hooker Research Center, 135 Dauer Drive, Campus Box 7431, Chapel Hill, NC 27599
Email:rfry@email.unc.edu
Phone:919-843-6864 
Funding Source:NIEHS

Subject:

Subject ID:SU000069
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:Infant
Species Group:Human

Factors:

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

mb_sample_id local_sample_id As Exposure
SA002211C-059high
SA002212C-062high
SA002213C-071high
SA002214C-074high
SA002215C-058high
SA002216C-018high
SA002217C-007high
SA002218C-104high
SA002219C-024high
SA002220C-026high
SA002221C-031high
SA002222C-132high
SA002223C-164high
SA002224C-187high
SA002225C-189high
SA002226C-200high
SA002227C-134high
SA002228C-133high
SA002229C-117high
SA002230C-120high
SA002231C-006high
SA002232C-116high
SA002233C-005high
SA002234C-004high
SA002235C-003high
SA002236C-095low
SA002237C-094low
SA002238C-096low
SA002239C-098low
SA002240C-092low
SA002241C-097low
SA002242C-085low
SA002243C-053low
SA002244C-075low
SA002245C-081low
SA002246C-111low
SA002247C-086low
SA002248C-115low
SA002249C-194low
SA002250C-175low
SA002251C-197low
SA002252C-214low
SA002253C-218low
SA002254C-167low
SA002255C-151low
SA002256C-045low
SA002257C-123low
SA002258C-128low
SA002259C-129low
SA002260C-113low
SA002205CBS-HighP-01RPooled-High
SA002206CBS-HighP-02Pooled-High
SA002207CBS-LowP-01Pooled-Low
SA002208CBS-LowP-02Pooled-Low
SA002209CBS-TotalP-01RPooled-Total
SA002210CBS-TotalP-02Pooled-Total
Showing results 1 to 56 of 56

Collection:

Collection ID:CO000052
Collection Summary:Fetal cord blood serum was collected immediately after delivery from a saline cleaned umbilical cord using an anticoagulant-free vacutainer tube, after clot formation the tube was centrifuged at 1200 rpm and the serum was collected and stored at -70°C.
Sample Type:Cord Blood Serum
Collection Location:Gómez Palacio, Durango, Mexico

Treatment:

Treatment ID:TR000070

Sample Preparation:

Sampleprep ID:SP000065
Sampleprep Summary:Fifty (50) µl of 0.9% NaCl solution containing 4mM sodium formate (Chemical Shift Indicator) and 0.2% NaN3 (to inhibit bacterial growth) in D2O was pipetted into each of the 50 serum samples (150 µl aliquots). Each 200 µl sample was vortexed for 30 seconds and transferred into 3mm NMR tubes (Bruker Bio-Spin, Germany). Pooled serum samples for each phenotype were made by combining 12 µl aliquots from each of the study samples in the phenotypic group (low and high) into two separate eppendorf tubes. A combined total pooled sample was also prepared by combining 6 µl aliquots from all samples into an eppendorf tube. The pooled samples were prepared as described above and were used as quality check (QC) samples.
Sampleprep Protocol Filename:Fetal_Metabolomics_of_iAs_exposure_Metabolomics_Procedure.docx
Processing Method:Dilution with D2O containing 0.9% NaCl and 4 mM Formate
Processing Storage Conditions:On ice

Chromatography:

Chromatography ID:CH000056

Analysis:

Analysis ID:AN000087
Laboratory Name:RTI, DHMRI
Analysis Type:NMR
Acquisition Date:41367
Software Version:TopSpin 3.0
Operator Name:Wimal Pathmasiri, Kevin Knagge
Randomization Order:Yes
Detector Type:NMR
Chromatography ID:CH000056
Num Factors:5
Num Metabolites:29

NMR:

NMR ID:NM000024
Analysis ID:AN000087
Instrument Name:Bruker Avance III
Instrument Type:FT-NMR
NMR Experiment Type:1D 1H
Field Frequency Lock:Deuterium
Standard Concentration:1 mM
Spectrometer Frequency:950 MHz
NMR Probe:5 mm Inverse ATMA
NMR Solvent:D2O
NMR Tube Size:3 mm, 4 inches
Shimming Method:Topshim
Pulse Sequence:cpmgpr1d
Water Suppression:presat
Pulse Width:8.06 s
Power Level:12.589W
Receiver Gain:4
Offset Frequency:4469.49 Hz
Chemical Shift Ref Cpd:Formate
Temperature:298 K
Number Of Scans:256
Dummy Scans:16
Relaxation Delay:2 s
Spectral Width:19531.25 Hz
Num Data Points Acquired:65523
Real Data Points:65536
Line Broadening:0.5
Zero Filling:Yes
Apodization:Lorentzian
Baseline Correction Method:Polynomial
Chemical Shift Ref Std:Formate
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