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.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000255 |
| Study Title | NIH WCMC Pilot & Feasibility Project: Metabolomics of Neonatal Pulmonary Hypertension in human |
| Study Type | Case-control study |
| Study Summary | Targeted 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 |
| Department | Nutrition |
| Laboratory | Newman Lab |
| Last Name | Newman |
| First Name | John |
| Address | 430 W. Health Sciences Dr., Davis, CA 95616 |
| john.newman@ars.usda.gov | |
| Phone | +1-530-752-1009 |
| Submit Date | 2015-09-03 |
| Num Groups | 4 |
| Total Subjects | 16 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Uploaded File Size | 32 M |
| Analysis Type Detail | LC-MS |
| Release Date | 2015-09-14 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
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 |
|---|---|---|
| SA011643 | BP588 | no PH (no pulmonary hypertension) |
| SA011644 | BP751 | no PH (no pulmonary hypertension) |
| SA011645 | BP253 | no PH (no pulmonary hypertension) |
| SA011646 | BP369 | no PH (no pulmonary hypertension) |
| SA011647 | BP333 | no PH (no pulmonary hypertension) |
| SA011648 | BP028 | no PH (no pulmonary hypertension) |
| SA011649 | BP388 | no PH (no pulmonary hypertension) |
| SA011650 | BP819 | no PH (no pulmonary hypertension) |
| SA011651 | BP191 | no PH (no pulmonary hypertension) |
| SA011652 | BP476 | no PH (no pulmonary hypertension) |
| SA011653 | BP122 | no PH (no pulmonary hypertension) |
| SA011654 | BP700 | no PH (no pulmonary hypertension) |
| SA011655 | BP342 | no PH (no pulmonary hypertension) |
| SA011656 | BP408 | no PH (no pulmonary hypertension) |
| SA011657 | BP090 | no PH (no pulmonary hypertension) |
| SA011658 | BP875 | no PH (no pulmonary hypertension) |
| SA011659 | BP496 | no PH (no pulmonary hypertension) |
| SA011660 | BP009 | no PH (no pulmonary hypertension) |
| SA011661 | BP332 | no PH (no pulmonary hypertension) |
| SA011662 | BP169 | no PH (no pulmonary hypertension) |
| SA011663 | BP406 | no PH (no pulmonary hypertension) |
| SA011622 | BP515 | PH (pulmonary hypertension) |
| SA011623 | BP385 | PH (pulmonary hypertension) |
| SA011624 | P288 | PH (pulmonary hypertension) |
| SA011625 | P003 | PH (pulmonary hypertension) |
| SA011626 | BP158 | PH (pulmonary hypertension) |
| SA011627 | P295 | PH (pulmonary hypertension) |
| SA011628 | BP121 | PH (pulmonary hypertension) |
| SA011629 | BP541 | PH (pulmonary hypertension) |
| SA011630 | BP522 | PH (pulmonary hypertension) |
| SA011631 | BP516 | PH (pulmonary hypertension) |
| SA011632 | BP295 | PH (pulmonary hypertension) |
| SA011633 | BP185 | PH (pulmonary hypertension) |
| SA011634 | BP289 | PH (pulmonary hypertension) |
| SA011635 | BP407 | PH (pulmonary hypertension) |
| SA011636 | BP010 | PH (pulmonary hypertension) |
| SA011637 | BP132 | PH (pulmonary hypertension) |
| SA011638 | BP312 | PH (pulmonary hypertension) |
| SA011639 | P302 | PH (pulmonary hypertension) |
| SA011640 | BP832 | PH (pulmonary hypertension) |
| SA011641 | BP732 | PH (pulmonary hypertension) |
| SA011642 | BP497 | PH (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 |
Combined analysis:
| Analysis ID | AN000403 |
|---|---|
| Analysis type | MS |
| Chromatography type | |
| Chromatography system | Waters Acquity |
| Column | |
| MS Type | ESI |
| MS instrument type | Triple quadrupole |
| MS instrument name | ABI Sciex API 4000 QTrap |
| Ion Mode | NEGATIVE |
| Units | % Area Ratio |
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 |
MS:
| MS ID: | MS000347 |
| Analysis ID: | AN000403 |
| Instrument Name: | ABI Sciex API 4000 QTrap |
| Instrument Type: | Triple quadrupole |
| MS Type: | ESI |
| MS Comments: | See protocol file |
| Ion Mode: | NEGATIVE |
