Summary of study ST001131

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 PR000756. The data can be accessed directly via it's Project DOI: 10.21228/M8ZH5N This work is supported by NIH grant, U2C- DK119886.

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Study IDST001131
Study TitlePresentation of different serum metabolites in trauma patients versus healthy volunteers.
Study SummaryThis study seeks to identify critical metabolic differences between patients who have undergone physical trauma and patients who have not experienced physical trauma.
Institute
Texas Tech University
DepartmentUniversity Health Sciences Center
Last NameMudaliar
First NameNithya
Address3601 4th St, Lubbock, TX 79430
Emailnithya.s.mudaliar@ttuhsc.edu
Phone8067436794
Submit Date2019-01-28
Num Groups2
Total Subjects12
Raw Data AvailableYes
Raw Data File Type(s).cdf
Release Date2019-03-06
Release Version1
Nithya Mudaliar Nithya Mudaliar
https://dx.doi.org/10.21228/M8ZH5N
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000756
Project DOI:doi: 10.21228/M8ZH5N
Project Title:Untargeted GC-MS Analysis in human serum from trauma and healthy patients.
Project Summary:Untargeted GC-MS analysis was used to analysis the serum from 6 trauma patients and 6 healthy control patients. This project aims to identify metabolic differences between the two groups.
Institute:University of California, Davis
Department:Genome and Biomedical Sciences Facility
Laboratory:WCMC Metabolomics Core
Last Name:Fiehn
First Name:Oliver
Address:451 East Health Science Drive
Email:ofiehn@ucdavis.edu
Phone:(530) 754-8258

Factors:

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

mb_sample_id local_sample_id Treatment
SA078095HV1_001Healthy
SA078096HV27_006Healthy
SA078097HV22_005Healthy
SA078098HV2_002Healthy
SA078099HV7_003Healthy
SA078100HV13_004Healthy
SA078101TP19_012Trauma
SA078102TP17_011Trauma
SA078103TP3_007Trauma
SA078104TP7_008Trauma
SA078105TP12_009Trauma
SA078106TP15_010Trauma

Treatment:

Treatment ID:TR001207
Treatment Summary:Samples were collected from patients who had undergone some type of physical trauma. This group consisted of six patients. Serum samples from six patients who had not experienced physical trauma, were considered health, and were of similar characteristics to the patients in the trauma group. Overall, 12 samples were collected from 2 groups of patients, comprised of six patients each.

Collection:

Collection ID:CO001186
Collection Summary:Serum samples were collected from each human after exposure to each treatment group. Samples were snap frozen and shipped to the WCMC on dry ice. Upon arrival, samples were placed in a -80°C freezer.
Sample Type:Blood (serum)

Sample Preparation:

Sampleprep ID:SP001200
Sampleprep Summary:All extraction procedures are performed over crushed ice. Samples were defrosted over crushed ice for 30 minutes or until defrosted. 30 µL of serum was aliquoted from the original sample into a 1.5 mL Eppendorf tube. 1 mL of 3:3:2 ACN:IPA:Water was added to each sample. Samples were vortexed for 10 seconds. Samples were shaken for 6 minutes at 4°C using an orbital mixing plate. Samples were centrifuged for 2 minutes at 14,000 rcf. 2 aliquots of 475 µL were removed from the supernatant and placed into new 1.5 mL Eppendorf tubes. 1 sample is frozen at -20°C and saved as a backup. The other sample is dried to completeness using a Labconco Centrivap.
Sample Derivatization:To the dried down samples, 10 µL of a prepared methoxyamine solution was added to each sample. Samples were shaken on an Orbital Mixing Chilling/Heating Plate at 30°C for 1.5 hours. 91 µL of a N-methyl-N-(trimethylsilyl)-trifluoroacetamide (MSTFA) and fatty-acid methyl-esters (FAMES) solution was added to each sample. Samples were shaken on an Orbital Mixing Chilling/Heating Plate at 37°C for 30 minutes. Contents were transferred to individual glass vials with micro-inserts and capped immediately. Submitted to GC-MS analysis.

Combined analysis:

Analysis ID AN001856
Analysis type MS
Chromatography type GC
Chromatography system Agilent 7890A
Column Restek Rtx-5Sil MS (30 x 0.25mm, 0.25um)
MS Type ESI
MS instrument type GC-TOF
MS instrument name Leco Pegasus III GC TOF
Ion Mode POSITIVE

Chromatography:

Chromatography ID:CH001343
Instrument Name:Agilent 7890A
Column Name:Restek Rtx-5Sil MS (30 x 0.25mm, 0.25um)
Column Temperature:50-330°C
Flow Rate:1 mL min^(-1)
Injection Temperature:50°C ramped to 250°C by 12°C s-1
Oven Temperature:50°C for 1 min, then ramped at 20°C min-1 to 330°C, held constant for 5 min
Chromatography Type:GC

MS:

MS ID:MS001716
Analysis ID:AN001856
Instrument Name:Leco Pegasus III GC TOF
Instrument Type:GC-TOF
MS Type:ESI
MS Comments:N/A
Ion Mode:POSITIVE
Ion Source Temperature:250°C
Ionization Energy:-70 eV
Resolution Setting:17 spectra s-1