Summary of Study ST001412

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 PR000968. The data can be accessed directly via it's Project DOI: 10.21228/M8K688 This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

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Study IDST001412
Study TitleMetabolomics study in Plasma of Obese Patients with Neuropathy Identifies Potential Metabolomics Signatures
Study SummaryThe goal of this study was to characterize biochemical profiles observed in human plasma samples originating from an obese cohort stratified by a diagnosis of neuropathy as well as a cohort of lean control subjects without a clinical manifestation of neuropathy.
Institute
University of Michigan
Last NameFeldman
First NameEva
Address5017 AATBSRB, 109 Zina Pitcher Place Ann Arbor, MI 48109-2200
Emailefeldman@med.umich.edu
Phone734-763-7274
Submit Date2020-06-22
Raw Data File Type(s)wiff
Analysis Type DetailLC-MS
Release Date2021-06-15
Release Version1
Eva Feldman Eva Feldman
https://dx.doi.org/10.21228/M8K688
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000968
Project DOI:doi: 10.21228/M8K688
Project Title:Metabolomics study in Plasma of Obese Patients with Neuropathy Identifies Potential Metabolomics Signatures
Project Summary:The goal of this study was to characterize biochemical profiles observed in human plasma samples originating from an obese cohort stratified by a diagnosis of neuropathy as well as a cohort of lean control subjects without a clinical manifestation of neuropathy.
Institute:University of Michigan
Last Name:Feldman
First Name:Eva
Address:5017 AATBSRB, 109 Zina Pitcher Place Ann Arbor, MI 48109-2200
Email:efeldman@med.umich.edu
Phone:734-763-7274

Subject:

Subject ID:SU001486
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606

Factors:

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

mb_sample_id local_sample_id Group
SA115829MICH-01593Lean
SA115830MICH-01592Lean
SA115831MICH-01589Lean
SA115832MICH-01594Lean
SA115833MICH-01591Lean
SA115834MICH-01595Lean
SA115835MICH-01598Lean
SA115836MICH-01597Lean
SA115837MICH-01596Lean
SA115838MICH-01588Lean
SA115839MICH-01586Lean
SA115840MICH-01581Lean
SA115841MICH-01580Lean
SA115842MICH-01579Lean
SA115843MICH-01578Lean
SA115844MICH-01582Lean
SA115845MICH-01583Lean
SA115846MICH-01599Lean
SA115847MICH-01585Lean
SA115848MICH-01584Lean
SA115849MICH-01587Lean
SA115850MICH-01600Lean
SA115851MICH-01614Lean
SA115852MICH-01613Lean
SA115853MICH-01612Lean
SA115854MICH-01611Lean
SA115855MICH-01615Lean
SA115856MICH-01616Lean
SA115857MICH-01619Lean
SA115858MICH-01618Lean
SA115859MICH-01617Lean
SA115860MICH-01610Lean
SA115861MICH-01609Lean
SA115862MICH-01603Lean
SA115863MICH-01602Lean
SA115864MICH-01601Lean
SA115865MICH-01604Lean
SA115866MICH-01605Lean
SA115867MICH-01608Lean
SA115868MICH-01607Lean
SA115869MICH-01606Lean
SA115870MICH-01577Lean
SA115871MICH-01590Lean
SA115872MICH-01620Obese neuropathy
SA115873MICH-01528Obese neuropathy
SA115874MICH-01621Obese neuropathy
SA115875MICH-01623Obese neuropathy
SA115876MICH-01627Obese neuropathy
SA115877MICH-01624Obese neuropathy
SA115878MICH-01531Obese neuropathy
SA115879MICH-01533Obese neuropathy
SA115880MICH-01545Obese neuropathy
SA115881MICH-01547Obese neuropathy
SA115882MICH-01542Obese neuropathy
SA115883MICH-01536Obese neuropathy
SA115884MICH-01569Obese neuropathy
SA115885MICH-01631Obese neuropathy
SA115886MICH-01640Obese neuropathy
SA115887MICH-01653Obese neuropathy
SA115888MICH-01651Obese neuropathy
SA115889MICH-01654Obese neuropathy
SA115890MICH-01655Obese neuropathy
SA115891MICH-01526Obese neuropathy
SA115892MICH-01650Obese neuropathy
SA115893MICH-01649Obese neuropathy
SA115894MICH-01643Obese neuropathy
SA115895MICH-01642Obese neuropathy
SA115896MICH-01644Obese neuropathy
SA115897MICH-01646Obese neuropathy
SA115898MICH-01648Obese neuropathy
SA115899MICH-01548Obese neuropathy
SA115900MICH-01534Obese neuropathy
SA115901MICH-01557Obese neuropathy
SA115902MICH-01576Obese neuropathy
SA115903MICH-01559Obese neuropathy
SA115904MICH-01525Obese neuropathy
SA115905MICH-01555Obese neuropathy
SA115906MICH-01554Obese neuropathy
SA115907MICH-01575Obese neuropathy
SA115908MICH-01574Obese neuropathy
SA115909MICH-01551Obese neuropathy
SA115910MICH-01571Obese neuropathy
SA115911MICH-01563Obese neuropathy
SA115912MICH-01560Obese neuropathy
SA115913MICH-01556Obese neuropathy
SA115914MICH-01573Obese neuropathy
SA115915MICH-01562Obese neuropathy
SA115916MICH-01639Obese non neuropathy
SA115917MICH-01635Obese non neuropathy
SA115918MICH-01633Obese non neuropathy
SA115919MICH-01634Obese non neuropathy
SA115920MICH-01636Obese non neuropathy
SA115921MICH-01637Obese non neuropathy
SA115922MICH-01638Obese non neuropathy
SA115923MICH-01566Obese non neuropathy
SA115924MICH-01568Obese non neuropathy
SA115925MICH-01652Obese non neuropathy
SA115926MICH-01572Obese non neuropathy
SA115927MICH-01570Obese non neuropathy
SA115928MICH-01647Obese non neuropathy
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Collection:

Collection ID:CO001481
Collection Summary:Plasma was collected in purple EDTA tubes with 10 mL of buffy coat, inverted 10 times, incubated for 30-90 minutes at room temperature, and centrifuged at 3000 rpm for 10 minutes. The plasma supernatant was collected by aspirating plasma to approximately 5 mm above the buffy coat and plasma samples were stored in 0.5 mL aliquots at -80C prior to metabolomics analysis.
Sample Type:Blood (plasma)

Treatment:

Treatment ID:TR001501
Treatment Summary:None

Sample Preparation:

Sampleprep ID:SP001494
Sampleprep Summary:Samples were prepared using the automated MicroLab STAR® system from Hamilton Company. Several recovery standards were added prior to the first step in the extraction process for QC purposes. To remove protein, dissociate small molecules bound to protein or trapped in the precipitated protein matrix, and to recover chemically diverse metabolites, proteins were precipitated with methanol under vigorous shaking for 2 min (Glen Mills GenoGrinder 2000) followed by centrifugation. The resulting extract was divided into five fractions: two for analysis by two separate reverse phase (RP)/UPLC-MS/MS methods with positive ion mode electrospray ionization (ESI), one for analysis by RP/UPLC-MS/MS with negative ion mode ESI, one for analysis by HILIC/UPLC-MS/MS with negative ion mode ESI, and one sample was reserved for backup. Samples were placed briefly on a TurboVap® (Zymark) to remove the organic solvent. The sample extracts were stored overnight under nitrogen before preparation for analysis.

Combined analysis:

Analysis ID AN002362
Analysis type MS
Chromatography type Reversed phase
Chromatography system Waters Acquity
Column Waters Acquity BEH C18 (100 x 2mm, 1.7um)
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive Orbitrap
Ion Mode POSITIVE
Units peak area

Chromatography:

Chromatography ID:CH001732
Chromatography Summary:Low pH polar
Instrument Name:Waters Acquity
Column Name:Waters Acquity BEH C18 (100 x 2mm, 1.7um)
Chromatography Type:Reversed phase

MS:

MS ID:MS002204
Analysis ID:AN002362
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Proprietary analytical software for integration and peak picking
Ion Mode:POSITIVE
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