Summary of Study ST000255

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 PR000207. The data can be accessed directly via it's Project DOI: 10.21228/M8N30T This work is supported by NIH grant, U2C- DK119886.

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Study IDST000255
Study TitleNIH WCMC Pilot & Feasibility Project: “Metabolomics of Neonatal Pulmonary Hypertension” in human
Study TypeCase-control study
Study SummaryTargeted metabolomic analyses of oxylipins were performed on 40 human umbilical cord plasma samples collected from infants born prematurely (gestational age <37 weeks). Samples were analyzed by UPLC-MS/MS using a Waters Acquity UPLC and detected on an API 4000 QTrap (AB Sciex, Framingham, MA, USA) by multiple reaction monitoring (MRM) after negative mode electrospray ionization.
Institute
University of California, Davis
DepartmentNutrition
LaboratoryNewman Lab
Last NameNewman
First NameJohn
Address430 W. Health Sciences Dr., Davis, CA 95616
Emailjohn.newman@ars.usda.gov
Phone+1-530-752-1009
Submit Date2015-09-03
Num Groups4
Total Subjects16
Raw Data AvailableYes
Raw Data File Type(s)mzML
Uploaded File Size32 M
Analysis Type DetailLC-MS
Release Date2015-09-14
Release Version1
John Newman John Newman
https://dx.doi.org/10.21228/M8N30T
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000207
Project DOI:doi: 10.21228/M8N30T
Project Title:Metabolomics of Neonatal Pulmonary Hypertension (in Preterm Infants)
Project Type:Case-control study
Project Summary:This study aimed to determine metabolic patterns in cord blood associated with the development of pulmonary hypertension (PH) in human preterm infants. Umbilical cord blood was acquired from a nested case-control study of 20 premature (gestational age <37 weeks) infants with PH (cases) and 20 infants without PH (controls) selected from Prentice NICU birth cohort. Case and control infants were matched by race/ethnicity, gender, and gestational age. Archived cord blood plasma underwent metabolomics analysis.
Institute:University of California, Davis
Department:Department of Pediatrics, School of Medicine
Laboratory:Wedgwood lab
Last Name:Wedgwood
First Name:Stephen
Address:1002B, Research II, 4625 2nd Ave., Sacramento, CA 95817
Email:stephen.wedwood@ucdmc.ucdavis.edu
Phone:+1-916-734-1518
Funding Source:National Institute of Health U24 DK092993

Subject:

Subject ID:SU000275
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:Gestational age <37 weeks
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Treatment
SA011643BP588no PH (no pulmonary hypertension)
SA011644BP751no PH (no pulmonary hypertension)
SA011645BP253no PH (no pulmonary hypertension)
SA011646BP369no PH (no pulmonary hypertension)
SA011647BP333no PH (no pulmonary hypertension)
SA011648BP028no PH (no pulmonary hypertension)
SA011649BP388no PH (no pulmonary hypertension)
SA011650BP819no PH (no pulmonary hypertension)
SA011651BP191no PH (no pulmonary hypertension)
SA011652BP476no PH (no pulmonary hypertension)
SA011653BP122no PH (no pulmonary hypertension)
SA011654BP700no PH (no pulmonary hypertension)
SA011655BP342no PH (no pulmonary hypertension)
SA011656BP408no PH (no pulmonary hypertension)
SA011657BP090no PH (no pulmonary hypertension)
SA011658BP875no PH (no pulmonary hypertension)
SA011659BP496no PH (no pulmonary hypertension)
SA011660BP009no PH (no pulmonary hypertension)
SA011661BP332no PH (no pulmonary hypertension)
SA011662BP169no PH (no pulmonary hypertension)
SA011663BP406no PH (no pulmonary hypertension)
SA011622BP515PH (pulmonary hypertension)
SA011623BP385PH (pulmonary hypertension)
SA011624P288PH (pulmonary hypertension)
SA011625P003PH (pulmonary hypertension)
SA011626BP158PH (pulmonary hypertension)
SA011627P295PH (pulmonary hypertension)
SA011628BP121PH (pulmonary hypertension)
SA011629BP541PH (pulmonary hypertension)
SA011630BP522PH (pulmonary hypertension)
SA011631BP516PH (pulmonary hypertension)
SA011632BP295PH (pulmonary hypertension)
SA011633BP185PH (pulmonary hypertension)
SA011634BP289PH (pulmonary hypertension)
SA011635BP407PH (pulmonary hypertension)
SA011636BP010PH (pulmonary hypertension)
SA011637BP132PH (pulmonary hypertension)
SA011638BP312PH (pulmonary hypertension)
SA011639P302PH (pulmonary hypertension)
SA011640BP832PH (pulmonary hypertension)
SA011641BP732PH (pulmonary hypertension)
SA011642BP497PH (pulmonary hypertension)
Showing results 1 to 42 of 42

Collection:

Collection ID:CO000267
Collection Summary:-
Collection Protocol Filename:NewmanLab-FreeOxys-Protocol-P.pdf
Sample Type:Umbilical cord plasma
Storage Conditions:- 80°C
Storage Vials:Eppendorf tubes

Treatment:

Treatment ID:TR000287
Treatment Summary:Nested case-control study
Treatment Protocol Filename:NewmanLab-FreeOxys-Protocol-P.pdf

Sample Preparation:

Sampleprep ID:SP000281
Sampleprep Summary:Plasma was added directly to a Waters Ostro plate, mixed with the surrogates, antioxidants, and acetonitrile and the extract eluted through. The extracts were dried, reconstituted in 100?L 50:50 methanol:acetonitrile with internal standards 1?phenyl?3?hexanoic acid urea and 1?cyclohexyl?3-dodecanoic acid urea and filtered at 0.1 µm prior to analysis.
Sampleprep Protocol Filename:NewmanLab-FreeOxys-Protocol-P.pdf
Extraction Method:Ostro plate
Extract Cleanup:Ostro plate
Extract Storage:- 20 °C
Sample Resuspension:100 µL
Sample Spiking:See sample prep protocol file
Organ:Umbilical cord plasma

Chromatography:

Chromatography ID:CH000285
Chromatography Summary:Oxylipin analysis
Methods Filename:NewmanLab-FreeOxys-Protocol-P.pdf
Instrument Name:Waters Acquity
Column Temperature:60 C
Flow Gradient:See protocol/methods file
Flow Rate:0.25
Internal Standard:See protocol/methods file
Retention Time:See protocol/methods file
Sample Injection:5 L
Solvent A:100% water; 0.1% acetic acid
Solvent B:90% acetonitrile/ 10% isopropanol
Analytical Time:16 min
Weak Wash Solvent Name:20% methanol, 10% isopropanol
Weak Wash Volume:600 L
Strong Wash Solvent Name:50:50 Acetonitrile:Methanol
Strong Wash Volume:600 L
Sample Loop Size:17 L

Analysis:

Analysis ID:AN000403
Laboratory Name:Newman
Analysis Type:MS
Analysis Comments:Oxylipins analysis
Acquisition Time:16 min
Instrument Name:ABI Sciex API 4000 QTrap
Software Version:AB Sciex MultiQuant version 3.0.1
Operator Name:Michael La Frano
Detector Type:API 4000 QTrap (AB Sciex, Framingham, MA, USA)
Data Format:.mzML
Chromatography ID:CH000285
Num Factors:2
Num Metabolites:78
Units:% Area Ratio
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