Summary of Study ST000050

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 PR000048. The data can be accessed directly via it's Project DOI: 10.21228/M8101K This work is supported by NIH grant, U2C- DK119886.

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Study IDST000050
Study TitlePreterm Neonatal Urinary Renal Developmental and acute kidney injury Metabolomic Profiling
Study TypeMetabolomics
Study SummaryBrophy and Askenazi hypothesize that postnatal renal maturation results in specific identifiable patterns of urinary metabolites and that these profiles will be altered in the presence of AKI. Their long-term goal is to identify novel metabolomics urinary profiles that can provide real-time evidence of evolving neonatal renal injury thereby allowing earlier diagnosis and treatment.This study includes 40 pre-term infants age 2 days. Twenty infants were identified as not having AKI (11 females, mean gestational age=182.8 days, mean birth weight=834.0 grams) and 20 infants were identified as having AKI (13 females, mean gestational age=183.9 days, mean birth weight=815.8 grams). There are no statistical differences between the two groups based on gender, gestational age, and birth weight.
Institute
University of North Carolina
DepartmentRTI RCMRC
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 Subjects40
Raw Data AvailableYes
Raw Data File Type(s)fid
Uploaded File Size28 M
Analysis Type DetailNMR
Release Date2018-08-27
Release Version1
Susan Sumner Susan Sumner
https://dx.doi.org/10.21228/M8101K
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000048
Project DOI:doi: 10.21228/M8101K
Project Title:Preterm Neotal Urinary Renal Development and Acute Kidney Injury Metabolic Profiling
Project Type:Metabolomics
Project Summary:Preterm Neotal Urinary Renal Development and Acute Kidney Injury Metabolic Profiling
Institute:University of Iowa;University of Alabama
Department:None
Last Name:Brophy;Askenazi
First Name:Patrick;David
Address:1269 A-CBRB, 285 Newton Rd, Iowa City, IA 52242
Email:patrick-brophy@uiowa.edu
Phone:319-384-3090

Subject:

Subject ID:SU000068
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Gender:24 female; 16 male
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Acute Kidney Injury
SA002156UCON100591 0
SA002157UCON100707 0
SA002158UCON100725 0
SA002159UCON100547 0
SA002160UCON100390 0
SA002161UCON100153 0
SA002162UCON100200 0
SA002163UCON100220 0
SA002164UCON100741 0
SA002165UCON100745 0
SA002166UCON100975 0
SA002167UCON100996 0
SA002168UCON101010 0
SA002169UCON100972 0
SA002170UCON100948 0
SA002171UCON100781 0
SA002172UCON100836 0
SA002173UCON100922 0
SA002174UCON100150 0
SA002175UCON100252 0
SA002176UAKI100989 1
SA002177UAKI100595 1
SA002178UAKI100651 1
SA002179UAKI100691 1
SA002180UAKI100593 1
SA002181UAKI100592 1
SA002182UAKI100045 1
SA002183UAKI100159 1
SA002184UAKI100160 1
SA002185UAKI100694 1
SA002186UAKI100594 1
SA002187UAKI100925 1
SA002188UAKI100938 1
SA002189UAKI100700 1
SA002190UAKI100014 1
SA002191UAKI100983 1
SA002192UAKI100910 1
SA002193UAKI100858 1
SA002194UAKI100835 1
SA002195UAKI100868 1
SA002196UPCON0001 Pool
SA002197UPCON0002 Pool
SA002198UPCON0003 Pool
SA002199UPALL0003 Pool
SA002200UPAKI0003 Pool
SA002201UPAKI0001 Pool
SA002202UPAKI0002 Pool
SA002203UPALL0001 Pool
SA002204UPALL0002 Pool
Showing results 1 to 49 of 49

Collection:

Collection ID:CO000051
Collection Summary:-
Sample Type:Urine

Treatment:

Treatment ID:TR000069

Sample Preparation:

Sampleprep ID:SP000064
Sampleprep Summary:Frozen urine study samples were thawed on ice and vortexed for 30 seconds. Each of the 40 urine samples (200 µL) were prepared individually by addition of 25 µL D20 and 25 µL Chenomx Internal Standard (Chenomx ISTD, Edmonton, Alberta, Canada). Phenotypic pools for AKI and no AKI were generated with 60 µL of each urine sample pooled, mixed, divided into 3 aliquots. Additionally, 400 µL from both phenotypic pools were mixed to form a total pooled sample and divided into 3 aliquots. The pooled samples were prepared identically to the individual study samples. 1H NMR spectra of urine samples were acquired on a Bruker Avance 950 MHz NMR spectrometer (located at the David H. Murdock Research Institute at Kannapolis, NC, USA) using a 3 mm cryogenically cooled ATMA inverse probe and ambient temperature of 25℃. A 1D NOESY presaturation pulse sequence (noesypr1d, [recycle delay (RD)-90°-t1-90°-tm-90°-acquire free induction decay (FID) was used for data acquisition. For each sample 64 transients were collected into 65k data points using a spectral width of 14.01 kHz (20.14 ppm), 2 s relaxation delay, 100 ms mixing time, and an acquisition time of 2.324 s per FID. The water resonance was suppressed using resonance irradiation during the relaxation delay and mixing time. NMR spectra were processed using Chenomx NMR Suite 7.51 Professional (Chenomx, Edmonton, Alberta, Canada) software. Spectra were zero filled, and Fourier transformed after exponential multiplication with line broadening factor of 0.5. Phase and baseline of the spectra were manually corrected for each spectrum. Spectra were referenced internally to the DSS signal. The quality of each NMR spectrum was assessed for the level of noise and alignment of identified markers. Spectra were assessed for missing data and underwent quality checks. NMR bins (0.50-9.0 ppm) were made after excluding DSS, water (4.68-4.80 ppm), and Imidazole (7.20-7.28 ppm) using bucket Integration with a 0.04 ppm bucket width. Integrals of each of the bins were normalized to total integral of each of the spectrum.
Sampleprep Protocol Filename:RTI_NeonatalAKI_Metabolomics_Procedure.docx

Analysis:

Analysis ID:AN000086
Laboratory Name:RTI
Analysis Type:NMR
Software Version:Top Spin 3.2
Chromatography ID:CH000055
Num Factors:3

NMR:

NMR ID:NM000023
Analysis ID:AN000086
Instrument Name:Bruker Avance III
Instrument Type:FT-NMR
NMR Experiment Type:1D 1H
Field Frequency Lock:Deuterium
Standard Concentration:0.5mM
Spectrometer Frequency:950 MHz
NMR Probe:cyrogenically cooled ATMA inverse probe
NMR Solvent:D2O
NMR Tube Size:3mm
Shimming Method:Gradient
Pulse Sequence:NOESYpr1d
Water Suppression:yes
Pulse Width:19.9298
Receiver Gain:4
Offset Frequency:4468.3
Chemical Shift Ref Cpd:formate
Temperature:25 degrees celsius
Number Of Scans:64
Dummy Scans:4
Acquisition Time:1.73 seconds
Spectral Width:19.9298
Num Data Points Acquired:65536
Real Data Points:65536
Line Broadening:0.5
Zero Filling:yes
Apodization:Lorentzian
Baseline Correction Method:quad
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