Summary of Study ST000819
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 PR000557. The data can be accessed directly via it's Project DOI: 10.21228/M8P39J This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000819 |
| Study Title | Looking for changes in lipid levels with knock out of ACADM (shACADM) (part II) |
| Study Type | MS analysis |
| Study Summary | GSC 8-11 cells (20 million) were transduced with lentivirus coding for shACADM 4, 6, or scr (control). ACADM is an enzyme responsible for the metabolism of medium chain fatty acids (C4-C12). A round of selection was performed using puromycin to ensure only cells that had been transduced survived. Knockdown of ACADM was confirmed via western blot. Pellets were collected by centrifuging cells for 10 min at max speed. The pellets were washed and each sample was split into quadruplicate. |
| Institute | University of Michigan |
| Department | Biomedical Research Core Facilities |
| Laboratory | Metabolomics core |
| Last Name | Kachman |
| First Name | Maureen |
| Address | 6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714 |
| mkachman@med.umich.edu | |
| Phone | (734) 232-8175 |
| Submit Date | 2017-07-14 |
| Num Groups | 3 |
| Total Subjects | 3 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d |
| Analysis Type Detail | LC-MS |
| Release Date | 2018-02-07 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000557 |
| Project DOI: | doi: 10.21228/M8P39J |
| Project Title: | Changes in lipid levels with knock out of ACADM (shACADM) Lipidomics |
| Project Type: | MS analysis |
| Project Summary: | Looking for changes in lipid levels with knock out of ACADM |
| Institute: | University of Michigan |
| Department: | Molecular and Integrative Physiology (MCTP) |
| Laboratory: | Lyssiotis Lab |
| Last Name: | Lyssiotis |
| First Name: | Costas |
| Address: | Ann Arbor, MI |
| Email: | clyssiot@umich.edu |
| Phone: | 734-615-9133 |
Subject:
| Subject ID: | SU000845 |
| Subject Type: | HUMAN |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Mammals |
Factors:
Subject type: HUMAN; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Transduced with |
|---|---|---|
| SA045798 | S00021734 | shACADM4 |
| SA045799 | S00021733 | shACADM4 |
| SA045800 | S00021731 | shACADM4 |
| SA045801 | S00021732 | shACADM4 |
| SA045802 | S00021738 | shACADM6 |
| SA045803 | S00021737 | shACADM6 |
| SA045804 | S00021736 | shACADM6 |
| SA045805 | S00021735 | shACADM6 |
| SA045806 | S00021742 | shACADMscr |
| SA045807 | S00021740 | shACADMscr |
| SA045808 | S00021739 | shACADMscr |
| SA045809 | S00021741 | shACADMscr |
| Showing results 1 to 12 of 12 |
Collection:
| Collection ID: | CO000839 |
| Collection Summary: | - |
| Sample Type: | Cultured cells |
Treatment:
| Treatment ID: | TR000859 |
| Treatment Summary: | - |
Sample Preparation:
| Sampleprep ID: | SP000852 |
| Sampleprep Summary: | - |
| Sampleprep Protocol Filename: | A004_-_Shotgun_Lipidomics.pdf |
Combined analysis:
| Analysis ID | AN001300 | AN001301 | AN001302 |
|---|---|---|---|
| Analysis type | MS | MS | MS |
| Chromatography type | Reversed phase | Reversed phase | Reversed phase |
| Chromatography system | Shimadzu CTO-20A Nexera X2 | Shimadzu CTO-20A Nexera X2 | Agilent |
| Column | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) | Waters Xbridge BEH C18 (50 x 1mm,3.5um) |
| MS Type | ESI | ESI | ESI |
| MS instrument type | Triple TOF | Triple TOF | Triple quadrupole |
| MS instrument name | ABI Sciex 5600+ TripleTOF | ABI Sciex 5600+ TripleTOF | Agilent 6490A QQQ |
| Ion Mode | NEGATIVE | POSITIVE | POSITIVE |
| Units | peak area normalized | peak area normalized | pmol/ug protein |
Chromatography:
| Chromatography ID: | CH000910 |
| 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 |
| Chromatography ID: | CH000911 |
| Instrument Name: | Agilent |
| Column Name: | Waters Xbridge BEH C18 (50 x 1mm,3.5um) |
| Column Temperature: | 40 |
| Flow Rate: | 0.250 mL/min |
| Solvent A: | 100% water; 5 mM ammonium acetate, pH 9.9 |
| Solvent B: | 100% acetonitrile |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS001193 |
| Analysis ID: | AN001300 |
| 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: | MS001194 |
| Analysis ID: | AN001301 |
| Instrument Name: | ABI Sciex 5600+ TripleTOF |
| Instrument Type: | Triple TOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | A004_-_Shotgun_Lipidomics.pdf |
| MS ID: | MS001195 |
| Analysis ID: | AN001302 |
| Instrument Name: | Agilent 6490A QQQ |
| Instrument Type: | Triple quadrupole |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | A008_-_Acyl_Carnitines.pdf |
