Summary of study ST001364

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 PR000928. The data can be accessed directly via it's Project DOI: 10.21228/M8R094 This work is supported by NIH grant, U2C- DK119886.

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Study IDST001364
Study TitleCore Functional Nodes and Sex-Specific Pathways in Human Ischemic and Dilated Cardiomyopathy
Study SummaryRestricted access to human left ventricular myocardium is a significant limitation in the study of heart failure (HF). Here, we utilise a large human heart biobank of carefully procured, cryopreserved left ventricular myocardium to obtain direct molecular insights into ischaemic (ICM) and dilated cardiomyopathy (DCM), the most common causes of HF worldwide1. We performed unbiased, deep proteomic and metabolomic analyses of 51 left ventricular (LV) samples from 44 cryopreserved human ICM and DCM hearts, including age-matched, histopathologically normal, donor controls of both genders for comparison. For the first time, we report perturbed thyroid hormone signalling pathways in the myocardium of both types of HF, and unveil the interaction of gender with HF, including increased nitric oxide-related arginine metabolism in male hearts, and many gender-specific mitochondrial and X chromosome-linked protein and metabolite changes. We provide all raw data, in addition to an interactive online application, as a publicly-available resource.
Institute
University of Sydney
Last NameJohn
First NameO'Sullivan
AddressJohns Hopkins Dr, Camperdown NSW 2006, Australia
Emailjohn.osullivan@sydney.edu.au
Phone+447731801851
Submit Date2019-12-07
Raw Data AvailableYes
Analysis Type DetailAPI-MS
Release Date2020-04-30
O'Sullivan John O'Sullivan John
https://dx.doi.org/10.21228/M8R094
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000928
Project DOI:doi: 10.21228/M8R094
Project Title:Core Functional Nodes and Sex-Specific Pathways in Human Ischemic and Dilated Cardiomyopathy
Project Summary:Restricted access to human left ventricular myocardium is a significant limitation in the study of heart failure (HF). Here, we utilise a large human heart biobank of carefully procured, cryopreserved left ventricular myocardium to obtain direct molecular insights into ischaemic (ICM) and dilated cardiomyopathy (DCM), the most common causes of HF worldwide. We performed unbiased, deep proteomic and metabolomic analyses of 51 left ventricular (LV) samples from 44 cryopreserved human ICM and DCM hearts, including age-matched, histopathologically normal, donor controls of both genders for comparison. For the first time, we report perturbed thyroid hormone signalling pathways in the myocardium of both types of HF, and unveil the interaction of gender with HF, including increased nitric oxide-related arginine metabolism in male hearts, and many gender-specific mitochondrial and X chromosome-linked protein and metabolite changes. We provide all raw data, in addition to an interactive online application, as a publicly-available resource.
Institute:University of Sydney
Last Name:John
First Name:O'Sullivan
Address:Johns Hopkins Dr, Camperdown NSW 200 6, Australia
Email:john.osullivan@sydney.edu.au
Phone:+447731801851

Subject:

Subject ID:SU001438
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 Condition Gender
SA09908514_22DCM F
SA09908625_55DCM F
SA09908740_74DCM F
SA0990884_19DCM F
SA09908943_48DCM F
SA09909017_57DCM M
SA09909150_20DCM M
SA09909273_67DCM M
SA09909323_60DCM M
SA09909484_32DCM M
SA09909577_5DCM M
SA09909664_43DCM M
SA09909793_73DCM M
SA09909832_58DCM M
SA09909983_1Donor F
SA09910053_51Donor F
SA09910167_56Donor F
SA09910239_61Donor F
SA09910337_4Donor F
SA09910489_39Donor F
SA09910578_15Donor F
SA09910629_8Donor F
SA09910775_75Donor M
SA09910830_70Donor M
SA09910947_54Donor M
SA0991109_52Donor M
SA09911115_9Donor M
SA09911220_14Donor M
SA09911312_40Donor M
SA09911438_68ICM F
SA09911534_69ICM F
SA09911642_49ICM F
SA09911795_64ICM F
SA09911879_11ICM F
SA0991192_3ICM M
SA0991207_72ICM M
SA09912170_13ICM M
SA09912224_10ICM M
SA09912354_66ICM M
SA09912428_47ICM M
SA09912590_45ICM M
SA09912644_59ICM M
SA09912727_28ICM M
SA09912894_7ICM M
Showing results 1 to 44 of 44

Collection:

Collection ID:CO001433
Collection Summary:Donor hearts were procured but not used for heart transplantation (reasons included transportation logistics, donor-recipient mismatch in size, and immune incompatibility), whilst heart failure samples comprised those patients undergoing heart transplantation.
Sample Type:Heart

Treatment:

Treatment ID:TR001453
Treatment Summary:LV samples from both donors and heart failure patients were collected and snap frozen (-196 °C) immediately within the operating theatre. All samples were stored in the Sydney Heart Bank at -170 to -180°C from the time of harvest.

Sample Preparation:

Sampleprep ID:SP001446
Sampleprep Summary:These samples are not post-mortem. Frozen heart tissues were crushed to powder in liquid nitrogen and weighed for metabolomic (~150 mg) analysis.

Combined analysis:

Analysis ID AN002270 AN002271
Analysis type MS MS
Chromatography type HILIC HILIC
Chromatography system Agilent 1260 Agilent 1260
Column Waters Atlantis HILIC 100Å (100 x 2.1mm, 3um) Waters XBridge Amide (100 x 4.6mm, 3.5um)
MS Type API API
MS instrument type Triple quadrupole Triple quadrupole
MS instrument name ABI Sciex 5500 QTrap ABI Sciex 5500 QTrap
Ion Mode POSITIVE NEGATIVE
Units intensity (arbitrary unit) intensity (arbitrary unit)

Chromatography:

Chromatography ID:CH001669
Instrument Name:Agilent 1260
Column Name:Waters Atlantis HILIC 100Å (100 x 2.1mm, 3um)
Chromatography Type:HILIC
  
Chromatography ID:CH001670
Instrument Name:Agilent 1260
Column Name:Waters XBridge Amide (100 x 4.6mm, 3.5um)
Chromatography Type:HILIC

MS:

MS ID:MS002114
Analysis ID:AN002270
Instrument Name:ABI Sciex 5500 QTrap
Instrument Type:Triple quadrupole
MS Type:API
MS Comments:Interface: Turboionspray, positive ionization mode Scan Mode: Scheduled multiple reaction monitoring (MRM) sMRM Window: 30 sec Target Scan Time: 1.0 sec Source Temp: 450°C Ion Source position: Vertical: 1, Horizontal: 5
Ion Mode:POSITIVE
  
MS ID:MS002115
Analysis ID:AN002271
Instrument Name:ABI Sciex 5500 QTrap
Instrument Type:Triple quadrupole
MS Type:API
MS Comments:Interface: Turboionspray, negative ionization mode Scan Mode: Scheduled multiple reaction monitoring (MRM) sMRM Window: 30 sec Target Scan Time: 1.0 sec Source Temp: 450°C Ion Source position: Vertical: 1, Horizontal: 5
Ion Mode:NEGATIVE
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