Summary of Study ST003057

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 PR001905. The data can be accessed directly via it's Project DOI: 10.21228/M8GH8F This work is supported by NIH grant, U2C- DK119886.

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This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST003057
Study TitleSpatiotemporal mapping of lipid disturbance in heart injury - Part 1
Study SummaryThe project consists of 3 studies in total, in this study, mouse tissue were collected for LC-MS/MS based lipidomics. The heart tissue underwent I/R injury at different time points (0h, 3h, 24h, 3d, 7d) were separate into infarct, remote and border area for investigation.
Institute
National University of Singapore
Last Namechenyuan
First Namehuang
Address14 medical drive, Singapore
Emailhuangchenyuan@u.nus.edu
Phone80384853
Submit Date2024-01-25
Raw Data AvailableYes
Raw Data File Type(s)mzML, d
Analysis Type DetailLC-MS
Release Date2025-01-30
Release Version1
huang chenyuan huang chenyuan
https://dx.doi.org/10.21228/M8GH8F
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001905
Project DOI:doi: 10.21228/M8GH8F
Project Title:Spatiotemporal mapping of lipid disturbance in heart injury
Project Summary:Disturbance of myocardial lipid metabolism occurring in response to cardiac injury has been closely associated with heart failure. However, the spatial and temporal myocardial lipid profiles in heart injury remain unexplored. Here, we employ the matrix-assisted laser desorption ionization mass spectrometry imaging (MALDI-MSI) and liquid chromatography tandem mass spectrometry (LC-MS/MS) to analyze myocardial lipid profiles in heart injury induced by myocardial ischemia/reperfusion (I/R) in both mice and pigs.
Institute:National University of Singapore
Last Name:chenyuan
First Name:huang
Address:14 Medical Drive, MD6, Singapore
Email:huangchenyuan@u.nus.edu
Phone:80384853

Subject:

Subject ID:SU003172
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Time Sample type
SA331696102190I0h infarct
SA331697102189I0h infarct
SA331698102188I0h infarct
SA331699102192I0h infarct
SA331700102191I0h infarct
SA331701102193I0h infarct
SA331702102188R0h remote
SA331703102193R0h remote
SA331704102191R0h remote
SA331705102189R0h remote
SA331706102192R0h remote
SA331707102190R0h remote
SA331708101924B24h border
SA331709101922B24h border
SA331710101925B24h border
SA331711101923B24h border
SA331712101913B24h border
SA331713101912B24h border
SA331714101924I24h infarct
SA331715101913I24h infarct
SA331716101925I24h infarct
SA331717101912I24h infarct
SA331718101922I24h infarct
SA331719101923I24h infarct
SA331720101922R24h remote
SA331721101924R24h remote
SA331722101913R24h remote
SA331723101912R24h remote
SA331724101923R24h remote
SA331725101925R24h remote
SA331726101915B3d border
SA331727101926B3d border
SA331728101927B3d border
SA331729101914B3d border
SA331730101917B3d border
SA331731101916B3d border
SA331732101915I3d infarct
SA331733101917I3d infarct
SA331734101916I3d infarct
SA331735101927I3d infarct
SA331736101926I3d infarct
SA331737101914I3d infarct
SA331738101915R3d remote
SA331739101927R3d remote
SA331740101926R3d remote
SA331741101914R3d remote
SA331742101916R3d remote
SA331743101917R3d remote
SA331744101909B3h border
SA331745101921B3h border
SA331746101911B3h border
SA331747101910B3h border
SA331748101920B3h border
SA331749101908B3h border
SA331750101910I3h infarct
SA331751101911I3h infarct
SA331752101908I3h infarct
SA331753101909I3h infarct
SA331754101921I3h infarct
SA331755101920I3h infarct
SA331756101911R3h remote
SA331757101920R3h remote
SA331758101921R3h remote
SA331759101909R3h remote
SA331760101908R3h remote
SA331761101910R3h remote
SA331762101931B7d border
SA331763101928B7d border
SA331764101930B7d border
SA331765101929B7d border
SA331766101919B7d border
SA331767101918B7d border
SA331768101928I7d infarct
SA331769101929I7d infarct
SA331770101931I7d infarct
SA331771101919I7d infarct
SA331772101930I7d infarct
SA331773101918I7d infarct
SA331774101919R7d remote
SA331775101928R7d remote
SA331776101918R7d remote
SA331777101929R7d remote
SA331778101930R7d remote
SA331779101931R7d remote
SA331780101933LVcontrol control_heart_tissue
SA331781102194LVcontrol control_heart_tissue
SA331782101935LVcontrol control_heart_tissue
SA331783101937LVcontrol control_heart_tissue
SA331784101936LVcontrol control_heart_tissue
SA331785101934LVcontrol control_heart_tissue
Showing results 1 to 90 of 90

Collection:

Collection ID:CO003165
Collection Summary:Mice were sacrificed at different time points after I/R injury, blood was collected in EDTA-coated tubes (Greiner Bio-One, Kremsmünster, Austria) via submandibular vein by cheek puncture and was subsequently centrifuged at 4 °C, 2000 g for 10 min, to obtain plasma. The hearts were perfused with saline, and the atria and right ventricles were removed. Left ventricles were divided transversally, the bottom parts were dissected for LC-MS/MS and upper part was later used for MALDI-MSI. Sham surgery was performed (referred to as control) where all procedures were the same as the experimental group except for the LAD ligation. Tissue and blood from sham group were collected 24 hours after surgery to serve as baseline lipid levels (control).
Sample Type:Heart

Treatment:

Treatment ID:TR003181
Treatment Summary:There is no treatment, but the factor contains different time and collection region of the tissue

Sample Preparation:

Sampleprep ID:SP003178
Sampleprep Summary:Approximately 10 mg of frozen heart tissue that was manually dissected into infarct and remote regions based on the morphology under a light microscope was homogenized with 5 mm stainless steel beads (QIAGEN, Hilden, Germany) in 100 μL of PBS on ice using TissueLyser LT (QIAGEN) with 2 min of 25 oscillation/s for three times. Protein concentrations were determined by Pierce Detergent Compatible Bradford Assay (Thermo Fisher Scientific) following manufacture’s instruction. All samples were kept at -80°C until further analysis. 10 µL tissue homogenate was mixed with 100 µL butanol/methanol (1:1, v:v; Merck Millipore, Massachusetts, USA) spiked with the following internal standards: 400 nM phosphatidylethanolamine (PE) 17:0/17:0, 2.4 nM ceramide (Cer) d18:1/8:0, 200 nM phosphatidylcholine (PC) 13:0/13:0, 1.7 nM hexosylceramide (HexCer) d18:1/8:0, 400 nM lysophosphatidylcholine (LPC) 13:0, 400 nM lysophosphatidylethanolamine (LPE) 14:0, 400 nM phosphatidylserine (PS) 17:0/17:0, 3.6 nM sphingomyelin (SM) d18:1/6:0, 0.8 nM sphingosine d18:1 d7 and 0.8 nM sphingosine d18:0 d7 from Avanti Polar Lipids; 400 nM triacylglycerides (TAG) 12:0/12:0/12:0 from Sigma Aldrich. The samples were sonicated for 30 min followed by centrifugation at 14,000 g for 10 min at 22°C. The supernatant was analysed by LC-MS
Extraction Method:one phase extraction with 1:1 butanol/methanol
Extract Cleanup:by taking the supernatant
Extract Storage:On ice

Chromatography:

Chromatography ID:CH003785
Chromatography Summary:The supernatant was analysed using an Agilent 1290 series UHPLC system connected to an Agilent 6495 QQQ mass spectrometer after separation on a ZORBAX Eclipse plus C18 column (2.1 x 50 mm, 1.8 µm, 95 Å, Agilent) at 40 °C. The injection volume was 2 µL. Solvent A consisted of 60% water/40% acetonitrile (v/v) with 10 mM ammonium formate; solvent B consisted of 90% isopropanol/10% acetonitrile (v/v) with 10 mM ammonium formate. The gradient started with a flow rate of 0.4 mL/min at 20% B and increased to 60% B at 2 min, 100% B at 7 min, held at 100% B until 9 min, followed by equilibration with 20% B from 9.01 min until 10.8 min.
Instrument Name:Agilent 1290
Column Name:Agilent ZORBAX Eclipse Plus C18 (50 x 2.1mm,1.8um)
Column Temperature:40
Flow Gradient:20% B and increased to 60% B at 2 min, 100% B at 7 min, held at 100% B until 9 min, followed by equilibration with 20% B from 9.01 min until 10.8 min
Flow Rate:0.4 mL/min
Solvent A:60% water/40% acetonitrile (v/v) with 10 mM ammonium formate
Solvent B:90% isopropanol/10% acetonitrile (v/v) with 10 mM ammonium formate
Chromatography Type:Reversed phase

Analysis:

Analysis ID:AN005012
Laboratory Name:SLING
Analysis Type:MS
Chromatography ID:CH003785
Num Factors:15
Num Metabolites:233
Rt Units:Minutes
Units:umol/mg
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