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

Study ID	ST001412
Study Title	Metabolomics study in Plasma of Obese Patients with Neuropathy Identifies Potential Metabolomics Signatures
Study 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
Submit Date	2020-06-22
Raw Data File Type(s)	wiff
Analysis Type Detail	LC-MS
Release Date	2021-06-15
Release Version	1

Select appropriate tab below to view additional metadata details:

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
SA115829	MICH-01593	Lean
SA115830	MICH-01592	Lean
SA115831	MICH-01589	Lean
SA115832	MICH-01594	Lean
SA115833	MICH-01591	Lean
SA115834	MICH-01595	Lean
SA115835	MICH-01598	Lean
SA115836	MICH-01597	Lean
SA115837	MICH-01596	Lean
SA115838	MICH-01588	Lean
SA115839	MICH-01586	Lean
SA115840	MICH-01581	Lean
SA115841	MICH-01580	Lean
SA115842	MICH-01579	Lean
SA115843	MICH-01578	Lean
SA115844	MICH-01582	Lean
SA115845	MICH-01583	Lean
SA115846	MICH-01599	Lean
SA115847	MICH-01585	Lean
SA115848	MICH-01584	Lean
SA115849	MICH-01587	Lean
SA115850	MICH-01600	Lean
SA115851	MICH-01614	Lean
SA115852	MICH-01613	Lean
SA115853	MICH-01612	Lean
SA115854	MICH-01611	Lean
SA115855	MICH-01615	Lean
SA115856	MICH-01616	Lean
SA115857	MICH-01619	Lean
SA115858	MICH-01618	Lean
SA115859	MICH-01617	Lean
SA115860	MICH-01610	Lean
SA115861	MICH-01609	Lean
SA115862	MICH-01603	Lean
SA115863	MICH-01602	Lean
SA115864	MICH-01601	Lean
SA115865	MICH-01604	Lean
SA115866	MICH-01605	Lean
SA115867	MICH-01608	Lean
SA115868	MICH-01607	Lean
SA115869	MICH-01606	Lean
SA115870	MICH-01577	Lean
SA115871	MICH-01590	Lean
SA115872	MICH-01620	Obese neuropathy
SA115873	MICH-01528	Obese neuropathy
SA115874	MICH-01621	Obese neuropathy
SA115875	MICH-01623	Obese neuropathy
SA115876	MICH-01627	Obese neuropathy
SA115877	MICH-01624	Obese neuropathy
SA115878	MICH-01531	Obese neuropathy
SA115879	MICH-01533	Obese neuropathy
SA115880	MICH-01545	Obese neuropathy
SA115881	MICH-01547	Obese neuropathy
SA115882	MICH-01542	Obese neuropathy
SA115883	MICH-01536	Obese neuropathy
SA115884	MICH-01569	Obese neuropathy
SA115885	MICH-01631	Obese neuropathy
SA115886	MICH-01640	Obese neuropathy
SA115887	MICH-01653	Obese neuropathy
SA115888	MICH-01651	Obese neuropathy
SA115889	MICH-01654	Obese neuropathy
SA115890	MICH-01655	Obese neuropathy
SA115891	MICH-01526	Obese neuropathy
SA115892	MICH-01650	Obese neuropathy
SA115893	MICH-01649	Obese neuropathy
SA115894	MICH-01643	Obese neuropathy
SA115895	MICH-01642	Obese neuropathy
SA115896	MICH-01644	Obese neuropathy
SA115897	MICH-01646	Obese neuropathy
SA115898	MICH-01648	Obese neuropathy
SA115899	MICH-01548	Obese neuropathy
SA115900	MICH-01534	Obese neuropathy
SA115901	MICH-01557	Obese neuropathy
SA115902	MICH-01576	Obese neuropathy
SA115903	MICH-01559	Obese neuropathy
SA115904	MICH-01525	Obese neuropathy
SA115905	MICH-01555	Obese neuropathy
SA115906	MICH-01554	Obese neuropathy
SA115907	MICH-01575	Obese neuropathy
SA115908	MICH-01574	Obese neuropathy
SA115909	MICH-01551	Obese neuropathy
SA115910	MICH-01571	Obese neuropathy
SA115911	MICH-01563	Obese neuropathy
SA115912	MICH-01560	Obese neuropathy
SA115913	MICH-01556	Obese neuropathy
SA115914	MICH-01573	Obese neuropathy
SA115915	MICH-01562	Obese neuropathy
SA115916	MICH-01639	Obese non neuropathy
SA115917	MICH-01635	Obese non neuropathy
SA115918	MICH-01633	Obese non neuropathy
SA115919	MICH-01634	Obese non neuropathy
SA115920	MICH-01636	Obese non neuropathy
SA115921	MICH-01637	Obese non neuropathy
SA115922	MICH-01638	Obese non neuropathy
SA115923	MICH-01566	Obese non neuropathy
SA115924	MICH-01568	Obese non neuropathy
SA115925	MICH-01652	Obese non neuropathy
SA115926	MICH-01572	Obese non neuropathy
SA115927	MICH-01570	Obese non neuropathy
SA115928	MICH-01647	Obese 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.

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