Summary of Study ST000672

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 PR000470. The data can be accessed directly via it's Project DOI: 10.21228/M89G75 This work is supported by NIH grant, U2C- DK119886.

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Study IDST000672
Study TitleDiabetic Microvascular Plasma/Tissue Lipidomics- Comparison (part II)
Study TypeMS analysis
Study SummaryPlasma, kidney, sciatic nerve, and retina samples collected from control (db/m) and diabetic (db/db) mice. Samples snap frozen and stored at -80. Plasma volume measured and tissues weighed for lipid extraction.
Institute
University of Michigan
DepartmentBiomedical Research Core Facilities
LaboratoryMetabolomics core
Last NameKachman
First NameMaureen
Address6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714
Emailmkachman@med.umich.edu
Phone(734) 232-8175
Submit Date2017-06-05
Num Groups6
Total Subjects31
Study CommentsPlasma and kidney samples were originally prepped in June 2014 and analyzed on our first TripleTOF. George Michailidis has requested they be re-analyzed to compare results between platforms. N/R #91-111 are new samples that will be prepared for this experiment (n = 40). WHEN ANALYZING: need to separate by tissue (P, K, N, R) for imputation of missing values. Want raw data and normalized to IS.
Raw Data AvailableYes
Raw Data File Type(s)wiff
Analysis Type DetailLC-MS
Release Date2017-12-06
Release Version1
Maureen Kachman Maureen Kachman
https://dx.doi.org/10.21228/M89G75
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000470
Project DOI:doi: 10.21228/M89G75
Project Title:Diabetic Microvascular Plasma/Tissue Lipidomics- Comparison
Project Type:MS analysis
Project Summary:Determine lipids in plasma and microvascular complication prone tissues in diabetic mouse models
Institute:University of Michigan
Department:UMich Internal Medicine
Laboratory:Pennathur Lab
Last Name:Pennathur
First Name:Subramaniam
Address:University Michigan, 2900 Huron Parkway, Ann Arbor, MI 48105
Email:spennath@umich.edu
Phone:734 615 5757

Subject:

Subject ID:SU000695
Subject Type:Mouse
Subject Species:Mus musculus
Taxonomy ID:10090
Species Group:Mammal

Factors:

Subject type: Mouse; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id CONTROL_DIABETIC
SA038576S00021651db/db diabetic | Sample type:Kidney
SA038577S00021654db/db diabetic | Sample type:Kidney
SA038578S00021656db/db diabetic | Sample type:Kidney
SA038579S00021659db/db diabetic | Sample type:Kidney
SA038580S00021658db/db diabetic | Sample type:Kidney
SA038581S00021648db/db diabetic | Sample type:Plasma
SA038582S00021649db/db diabetic | Sample type:Plasma
SA038583S00021644db/db diabetic | Sample type:Plasma
SA038584S00021642db/db diabetic | Sample type:Plasma
SA038585S00021646db/db diabetic | Sample type:Plasma
SA038586S00021678db/db diabetic | Sample type:Retina
SA038587S00021699db/db diabetic | Sample type:Retina
SA038588S00021697db/db diabetic | Sample type:Retina
SA038589S00021679db/db diabetic | Sample type:Retina
SA038590S00021696db/db diabetic | Sample type:Retina
SA038591S00021675db/db diabetic | Sample type:Retina
SA038592S00021677db/db diabetic | Sample type:Retina
SA038593S00021695db/db diabetic | Sample type:Retina
SA038594S00021676db/db diabetic | Sample type:Retina
SA038595S00021698db/db diabetic | Sample type:Retina
SA038596S00021689db/db diabetic | Sample type:Sciatic Nerve
SA038597S00021668db/db diabetic | Sample type:Sciatic Nerve
SA038598S00021685db/db diabetic | Sample type:Sciatic Nerve
SA038599S00021687db/db diabetic | Sample type:Sciatic Nerve
SA038600S00021688db/db diabetic | Sample type:Sciatic Nerve
SA038601S00021667db/db diabetic | Sample type:Sciatic Nerve
SA038602S00021669db/db diabetic | Sample type:Sciatic Nerve
SA038603S00021666db/db diabetic | Sample type:Sciatic Nerve
SA038604S00021665db/db diabetic | Sample type:Sciatic Nerve
SA038605S00021686db/db diabetic | Sample type:Sciatic Nerve
SA038606S00021650db/m control | Sample type:Kidney
SA038607S00021655db/m control | Sample type:Kidney
SA038608S00021653db/m control | Sample type:Kidney
SA038609S00021657db/m control | Sample type:Kidney
SA038610S00021652db/m control | Sample type:Kidney
SA038611S00021641db/m control | Sample type:Plasma
SA038612S00021643db/m control | Sample type:Plasma
SA038613S00021640db/m control | Sample type:Plasma
SA038614S00021647db/m control | Sample type:Plasma
SA038615S00021645db/m control | Sample type:Plasma
SA038616S00021693db/m control | Sample type:Retina
SA038617S00021694db/m control | Sample type:Retina
SA038618S00021692db/m control | Sample type:Retina
SA038619S00021691db/m control | Sample type:Retina
SA038620S00021690db/m control | Sample type:Retina
SA038621S00021670db/m control | Sample type:Retina
SA038622S00021672db/m control | Sample type:Retina
SA038623S00021671db/m control | Sample type:Retina
SA038624S00021674db/m control | Sample type:Retina
SA038625S00021673db/m control | Sample type:Retina
SA038626S00021663db/m control | Sample type:Sciatic Nerve
SA038627S00021662db/m control | Sample type:Sciatic Nerve
SA038628S00021661db/m control | Sample type:Sciatic Nerve
SA038629S00021660db/m control | Sample type:Sciatic Nerve
SA038630S00021664db/m control | Sample type:Sciatic Nerve
SA038631S00021683db/m control | Sample type:Sciatic Nerve
SA038632S00021681db/m control | Sample type:Sciatic Nerve
SA038633S00021684db/m control | Sample type:Sciatic Nerve
SA038634S00021682db/m control | Sample type:Sciatic Nerve
SA038635S00021680db/m control | Sample type:Sciatic Nerve
Showing results 1 to 60 of 60

Collection:

Collection ID:CO000689
Collection Summary:-
Sample Type:Blood

Treatment:

Treatment ID:TR000709
Treatment Summary:-

Sample Preparation:

Sampleprep ID:SP000702
Sampleprep Summary:-
Sampleprep Protocol Filename:A004_-_Shotgun_Lipidomics.pdf

Combined analysis:

Analysis ID AN001030 AN001031
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Shimadzu CTO-20A Nexera X2 Shimadzu CTO-20A Nexera X2
Column Waters Acquity HSS T3 (50 x 2.1mm,1.8um) Waters Acquity HSS T3 (50 x 2.1mm,1.8um)
MS Type ESI ESI
MS instrument type Triple TOF Triple TOF
MS instrument name ABI Sciex 5600+ TripleTOF ABI Sciex 5600+ TripleTOF
Ion Mode NEGATIVE POSITIVE
Units peak area normalized peak area normalized

Chromatography:

Chromatography ID:CH000735
Instrument Name:Shimadzu CTO-20A Nexera X2
Column Name:Waters Acquity HSS T3 (50 x 2.1mm,1.8um)
Column Temperature:55
Flow Rate:0.400uL/min
Solvent A:40% acetonitrile/60% water; 10 mM ammonium acetate
Solvent B:10% acetonitrile/5% water/85% isopropanol; 10 mM ammonium acetate
Chromatography Type:Reversed phase

MS:

MS ID:MS000925
Analysis ID:AN001030
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
Ion Mode:NEGATIVE
Analysis Protocol File:A004_-_Shotgun_Lipidomics.pdf
  
MS ID:MS000926
Analysis ID:AN001031
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
Ion Mode:POSITIVE
Analysis Protocol File:A004_-_Shotgun_Lipidomics.pdf
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