Summary of Study ST002822
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 PR001764. The data can be accessed directly via it's Project DOI: 10.21228/M8PT58 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
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.
| Study ID | ST002822 |
| Study Title | Effect of ERR Agonist in Mouse Heart Post Pressure Overload |
| Study Summary | The present heart dataset comprises a total of 855 biochemicals, 787 compounds of known identity (named biochemicals) and 68 compounds of unknown structural identity (unnamed biochemicals). The muscle dataset comprises a total of 711 biochemicals, 663 compounds of known identity (named biochemicals) and 48 compounds of unknown structural identity (unnamed biochemicals). Following normalization to mass of sample extracted for heart tissue (equal mass was extracted for muscle tissue samples, so no additional normalization was performed on muscle samples prior to statistical analysis), log transformation and imputation of missing values, if any, with the minimum observed value for each compound, 2-way ANOVA or Welch’s two-sample t-test analyses were used to identify biochemicals that differed significantly between experimental groups. A summary of the numbers of biochemicals that achieved statistical significance (p≤0.05), as well as those approaching significance (0.05<p<0.10), is shown below. |
| Institute | Baylor College of Medicine |
| Last Name | Xu |
| First Name | Weiyi |
| Address | One Baylor Plaza, Houston, TX, 77030-3498, USA |
| weiyi.xu@bcm.edu | |
| Phone | 8322755836 |
| Submit Date | 2023-08-09 |
| Analysis Type Detail | Other |
| Release Date | 2024-08-09 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001764 |
| Project DOI: | doi: 10.21228/M8PT58 |
| Project Title: | Effect of ERR Agonist in Mouse Heart Post Pressure Overload |
| Project Summary: | The present heart dataset comprises a total of 855 biochemicals, 787 compounds of known identity (named biochemicals) and 68 compounds of unknown structural identity (unnamed biochemicals). The muscle dataset comprises a total of 711 biochemicals, 663 compounds of known identity (named biochemicals) and 48 compounds of unknown structural identity (unnamed biochemicals). Following normalization to mass of sample extracted for heart tissue (equal mass was extracted for muscle tissue samples, so no additional normalization was performed on muscle samples prior to statistical analysis), log transformation and imputation of missing values, if any, with the minimum observed value for each compound, 2-way ANOVA or Welch’s two-sample t-test analyses were used to identify biochemicals that differed significantly between experimental groups. A summary of the numbers of biochemicals that achieved statistical significance (p?0.05), as well as those approaching significance (0.05<p<0.10), is shown below. |
| Institute: | Baylor College of Medicine |
| Last Name: | Xu |
| First Name: | Weiyi |
| Address: | One Baylor Plaza, Houston, TX, 77030-3498, USA |
| Email: | weiyi.xu@bcm.edu |
| Phone: | 8322755836 |
Subject:
| Subject ID: | SU002931 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment |
|---|---|---|
| SA305575 | WASH-02116 | Heart tissue SLU915 with sham surgery |
| SA305576 | WASH-02117 | Heart tissue SLU915 with sham surgery |
| SA305577 | WASH-02119 | Heart tissue SLU915 with sham surgery |
| SA305578 | WASH-02118 | Heart tissue SLU915 with sham surgery |
| SA305570 | WASH-02121 | Heart tissue SLU915 with TAC surgery |
| SA305571 | WASH-02123 | Heart tissue SLU915 with TAC surgery |
| SA305572 | WASH-02122 | Heart tissue SLU915 with TAC surgery |
| SA305573 | WASH-02125 | Heart tissue SLU915 with TAC surgery |
| SA305574 | WASH-02120 | Heart tissue SLU915 with TAC surgery |
| SA305587 | WASH-02127 | Heart tissue vehicle with sham surgery |
| SA305588 | WASH-02128 | Heart tissue vehicle with sham surgery |
| SA305589 | WASH-02129 | Heart tissue vehicle with sham surgery |
| SA305590 | WASH-02126 | Heart tissue vehicle with sham surgery |
| SA305579 | WASH-02137 | Heart tissue vehicle with TAC surgery |
| SA305580 | WASH-02136 | Heart tissue vehicle with TAC surgery |
| SA305581 | WASH-02131 | Heart tissue vehicle with TAC surgery |
| SA305582 | WASH-02130 | Heart tissue vehicle with TAC surgery |
| SA305583 | WASH-02133 | Heart tissue vehicle with TAC surgery |
| SA305584 | WASH-02132 | Heart tissue vehicle with TAC surgery |
| SA305585 | WASH-02134 | Heart tissue vehicle with TAC surgery |
| SA305586 | WASH-02135 | Heart tissue vehicle with TAC surgery |
| Showing results 1 to 21 of 21 |
Collection:
| Collection ID: | CO002924 |
| Collection Summary: | Heart tissue were freshly isolated from experimental mice and then flash-frozen in liquid N2 |
| Sample Type: | Heart |
Treatment:
| Treatment ID: | TR002940 |
| Treatment Summary: | Mice were subjected to 6-week Sham or Transverse aortic constriction (TAC) surgery, and treated with vehicle or SLU-PP-915 (10% Cremophor-10% DMSO-80% PBS) twice a day at ZT0 and ZT12 at the dose of 25mg/kg. |
Sample Preparation:
| Sampleprep ID: | SP002937 |
| 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 Protocol Filename: | SLU_Heart_Metabolomics_method.pdf |
Combined analysis:
| Analysis ID | AN004599 | AN004600 | AN004601 | AN004602 |
|---|---|---|---|---|
| Analysis type | MS | MS | MS | MS |
| Chromatography type | Reversed phase | Reversed phase | Reversed phase | HILIC |
| Chromatography system | Waters Acquity | Waters Acquity | Waters Acquity | Waters Acquity |
| Column | Waters ACQUITY UPLC BEH C18 (100 x 2.1mm,1.7um) | Waters ACQUITY UPLC BEH Amide (100 x 2.1mm,1.7um) | Waters ACQUITY UPLC BEH Amide (100 x 2.1mm,1.7um) | Waters Acquity BEH Amide (150 x 2.1mm, 1.7um) |
| MS Type | ESI | ESI | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap |
| Ion Mode | POSITIVE | POSITIVE | NEGATIVE | NEGATIVE |
| Units | log transformed data | log transformed data | log transformed data | log transformed data |
Chromatography:
| Chromatography ID: | CH003459 |
| Chromatography Summary: | Low pH polar (LC/MS Pos early) |
| Methods Filename: | SLU_Heart_Metabolomics_method.pdf |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters ACQUITY UPLC BEH C18 (100 x 2.1mm,1.7um) |
| Column Temperature: | - |
| Flow Gradient: | - |
| Flow Rate: | - |
| Solvent A: | - |
| Solvent B: | - |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH003460 |
| Chromatography Summary: | Low pH Lipophilic (LC/MS Pos late) |
| Methods Filename: | SLU_Heart_Metabolomics_method.pdf |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters ACQUITY UPLC BEH Amide (100 x 2.1mm,1.7um) |
| Column Temperature: | - |
| Flow Gradient: | - |
| Flow Rate: | - |
| Solvent A: | - |
| Solvent B: | - |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH003461 |
| Chromatography Summary: | High pH (LC/MS Neg) |
| Methods Filename: | SLU_Heart_Metabolomics_method.pdf |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters ACQUITY UPLC BEH Amide (100 x 2.1mm,1.7um) |
| Column Temperature: | - |
| Flow Gradient: | - |
| Flow Rate: | - |
| Solvent A: | - |
| Solvent B: | - |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH003462 |
| Chromatography Summary: | HILIC (LC/MS Polar) |
| Methods Filename: | SLU_Heart_Metabolomics_method.pdf |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity BEH Amide (150 x 2.1mm, 1.7um) |
| Column Temperature: | - |
| Flow Gradient: | - |
| Flow Rate: | - |
| Solvent A: | - |
| Solvent B: | - |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS004345 |
| Analysis ID: | AN004599 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Metabolon (LC/MS Pos early) |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | SLU_Heart_Metabolomics_method.pdf |
| MS ID: | MS004346 |
| Analysis ID: | AN004600 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Metabolon (LC/MS Pos late) |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | SLU_Heart_Metabolomics_method.pdf |
| MS ID: | MS004347 |
| Analysis ID: | AN004601 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Metabolon (LC/MS Neg) |
| Ion Mode: | NEGATIVE |
| Analysis Protocol File: | SLU_Heart_Metabolomics_method.pdf |
| MS ID: | MS004348 |
| Analysis ID: | AN004602 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Metabolon (LC/MS Polar) |
| Ion Mode: | NEGATIVE |
| Analysis Protocol File: | SLU_Heart_Metabolomics_method.pdf |
