Summary of Study ST001420

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 PR000974. The data can be accessed directly via it's Project DOI: 10.21228/M8SQ55 This work is supported by NIH grant, U2C- DK119886.

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Study IDST001420
Study TitleMetabolomic analysis of patients with recurrent angina
Study TypeCase and control studies
Study SummaryThis is a prospective study. After an overnight fast, venous blood was collected from patients with PCI. The patients were discharged after the blood draw. They were followed up every 30 days for angina recurrence up to 270 days (9 months). The samples were grouped into two groups: recurrent angina and angina-free based on the follow-up results at 9 months.
Institute
University of California, San Diego
Last NameCui
First NameSong
Address9500 Gilman Drive, San Diego, CA, 92093, USA
Emailkli@ucsd.edu
Phone8582304220
Submit Date2020-06-30
Num Groups2
Total Subjects750
Num Males365
Num Females385
Release Date2020-07-30
Release Version1
Song Cui Song Cui
https://dx.doi.org/10.21228/M8SQ55
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000974
Project DOI:doi: 10.21228/M8SQ55
Project Title:Metabolic biomarker signature to predict the risk of recurrent angina in remitted patients after percutaneous coronary intervention
Project Type:Targeted metabolomic analysis
Project Summary:Multi-center targeted metabolomic analysis for plasma samples collected from patients with stable angina after percutaneous coronary intervention
Institute:University of California, San Diego
Last Name:Cui
First Name:Song
Address:9500 Gilman Drive, San Diego, CA, 92093, USA
Email:kli@ucsd.edu
Phone:8582304220

Subject:

Subject ID:SU001494
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:59 ± 14.6
Gender:Male and female
Human Ethnicity:Asian
Human Medications:All with aspirin and clopidogrel
Human Smoking Status:22.2% were smokers
Human Inclusion Criteria:The inclusion criteria were hospitalized CAD patients with stable angina.
Human Exclusion Criteria:Patient with the lesion of > 90% stenosis or total occlusion, active inflammation (High sensitive C-reactive protein [hsCRP] >1.0 mg/dl), renal disease (serum creatinine > 3.0 mg/dl or ongoing hemodialysis), the onset of cancer in the previous five years, coronary artery bypass grafting, contraindications to iodine media, and severe hepatic insufficiency.

Factors:

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

mb_sample_id local_sample_id Disease
SA117772S142Angina
SA117773S141Angina
SA117774S143Angina
SA117775S144Angina
SA117776S145Angina
SA117777S140Angina
SA117778S138Angina
SA117779S135Angina
SA117780S134Angina
SA117781S136Angina
SA117782S137Angina
SA117783S146Angina
SA117784S139Angina
SA117785S147Angina
SA117786S155Angina
SA117787S154Angina
SA117788S156Angina
SA117789S157Angina
SA117790S158Angina
SA117791S153Angina
SA117792S152Angina
SA117793S148Angina
SA117794S149Angina
SA117795S150Angina
SA117796S151Angina
SA117797S133Angina
SA117798S132Angina
SA117799S115Angina
SA117800S114Angina
SA117801S116Angina
SA117802S117Angina
SA117803S118Angina
SA117804S113Angina
SA117805S112Angina
SA117806S108Angina
SA117807S109Angina
SA117808S110Angina
SA117809S111Angina
SA117810S119Angina
SA117811S120Angina
SA117812S128Angina
SA117813S127Angina
SA117814S129Angina
SA117815S130Angina
SA117816S131Angina
SA117817S126Angina
SA117818S125Angina
SA117819S121Angina
SA117820S122Angina
SA117821S123Angina
SA117822S124Angina
SA117823S159Angina
SA117824S160Angina
SA117825S195Angina
SA117826S194Angina
SA117827S196Angina
SA117828S197Angina
SA117829S198Angina
SA117830S193Angina
SA117831S192Angina
SA117832S188Angina
SA117833S189Angina
SA117834S190Angina
SA117835S191Angina
SA117836S199Angina
SA117837S200Angina
SA117838S208Angina
SA117839S207Angina
SA117840S209Angina
SA117841S210Angina
SA117842S1Angina
SA117843S206Angina
SA117844S205Angina
SA117845S201Angina
SA117846S202Angina
SA117847S203Angina
SA117848S204Angina
SA117849S187Angina
SA117850S186Angina
SA117851S168Angina
SA117852S167Angina
SA117853S169Angina
SA117854S170Angina
SA117855S171Angina
SA117856S166Angina
SA117857S165Angina
SA117858S161Angina
SA117859S162Angina
SA117860S163Angina
SA117861S164Angina
SA117862S172Angina
SA117863S174Angina
SA117864S182Angina
SA117865S181Angina
SA117866S183Angina
SA117867S184Angina
SA117868S185Angina
SA117869S180Angina
SA117870S179Angina
SA117871S175Angina
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Collection:

Collection ID:CO001489
Collection Summary:After an overnight fast, venous blood was collected from each patient at 48 h after PCI. Plasma was separated by centrifugation at 900 g for 10 minutes at room temperature within one hour of collection. The resulting fresh lithium-heparin plasma was transferred to new tubes and stored at -80 ˚C for further analysis.
Sample Type:Blood (plasma)
Collection Frequency:Once at 48 h after percutaneous coronary intervention (PCI)
Storage Conditions:-80℃
Collection Vials:Lithium-heparin tubes
Collection Tube Temp:Room temperature

Treatment:

Treatment ID:TR001509
Treatment Summary:This is an observational cohort study. No treatment is involved.

Sample Preparation:

Sampleprep ID:SP001502
Sampleprep Summary:Four volumes (400 µL) of prechilled (-20 ˚C) extraction buffer containing acetonitrile and methanol (50: 50, v/v) were added to 100 µL of plasma, vortexed vigorously, and incubated on crushed ice for 10 min. The mixture was then centrifuged at 16,000 g for 10 min at 4 ˚C. The supernatants containing the extracted metabolites were transferred to labeled cryotubes and stored at -80 ˚C for metabolomic analysis.
Processing Storage Conditions:On ice
Extract Storage:-80℃

Combined analysis:

Analysis ID AN002375
Analysis type MS
Chromatography type HILIC
Chromatography system Shimadzu 20AD
Column Shodex ODP2 HP-4B 5um polymer (50 x 4.6mm)
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name ABI Sciex 6500 QTrap
Ion Mode UNSPECIFIED
Units Peak area

Chromatography:

Chromatography ID:CH001743
Chromatography Summary:Metabolomic analysis was performed on a Shimadzu LC-20A ultra-high-performance liquid chromatography coupled with SCIEX QTRAP 6500+ triple quadrupole mass spectrometer (LC-MS/MS) using a broad-spectrum targeted metabolomic approach. Ten µL of the extract was injected into a 250 mm × 2.0 mm, 4 µm polymer-based NH2 HPLC column (Asahipak NH2P-40 2E, Showa Denko America, Inc., NY) held at 25°C for chromatographic separation. The mobile phase was solvent A: 95% water, 5% acetonitrile with 20 mM NH4OAC, and 20 mM NH4OH (pH 9.4); solvent B: 100% acetonitrile. Separation was achieved using the following gradient: 0-3.5 min: 95% B, 3.6-8 min: 85% B, 8.1-13 min: 75% B, 14-30 min: 0% B, 31-41 min: 95% B, 41.1 min: end. The flow rate was 250 µL/min.
Instrument Name:Shimadzu 20AD
Column Name:Shodex ODP2 HP-4B 5um polymer (50 x 4.6mm)
Column Temperature:25 ℃
Flow Gradient:0-3.5 min: 95% B, 3.6-8 min: 85% B, 8.1-13 min: 75% B, 14-30 min: 0% B, 31-41 min: 95% B, 41.1 min: end.
Flow Rate:250 µL/min
Solvent A:95% water/5% acetonitrile; 20 mM ammonium hydroxide, pH 9.4 (adjusted by formic acid)
Solvent B:100% acetonitrile
Chromatography Type:HILIC

MS:

MS ID:MS002217
Analysis ID:AN002375
Instrument Name:ABI Sciex 6500 QTrap
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:A total of 606 metabolites covering the major metabolic pathways were targeted by scheduled multiple reaction monitoring (sMRM) under Analyst v1.6.2 software control in both negative and positive mode with rapid polarity switching (20 ms). Nitrogen was used for curtain gas (set to 30), collision gas (set to high), ion source gas 1 and 2 (set to 35). The source temperature was set to 500 ˚C. Spray voltage was set to -4500 V for negative mode and 5500 V for positive mode.
Ion Mode:UNSPECIFIED
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