Summary of Study ST000685
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 PR000484. The data can be accessed directly via it's Project DOI: 10.21228/M8H03P This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000685 |
| Study Title | Lipidomics analysis for human liver cell lines |
| Study Type | MS analysis |
| Study Summary | On day 1, seed 1 million cells/dish Huh7_Lok cells (vector, GCKR(WT), GCKR(P446L), Non-Target, GCKR KD and PPP1R3B/OE) in 100 mm dishes with DMEM complete medium and incubate at 37C for 24 h. On day 2, replace DMEM medium with delipidated serum medium for these cells and incubate for another 24 h. On day 3, add heated Oleic Acid-Albumin into each dish at final concentration of 200?M for 24h. On day 4, collect cells with Trypsin/EDTA lysis and count cells with automated cell counter and calculate total cell numbers in each sample, then centrifuge cells down and take out the supernatant and keep cells in -80 C freezer. |
| 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 | 2017-06-05 |
| Num Groups | 6 |
| Total Subjects | 1 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | wiff |
| Analysis Type Detail | LC-MS |
| Release Date | 2018-04-10 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000484 |
| Project DOI: | doi: 10.21228/M8H03P |
| Project Title: | Molecular genetic study on nonalcoholic fatty liver disease (NAFLD) |
| Project Type: | MS analysis |
| Project Summary: | In this study, we determine the genetic mechanism of action by which variants near GCKR and PPP1R3B exert their effects on promoting NAFLD |
| Institute: | University of Michigan |
| Department: | Internal Medicine |
| Laboratory: | Speliotes Lab |
| Last Name: | Speliotes |
| First Name: | Elizabeth |
| Address: | Ann Arbor, MI |
| Email: | espeliot@umich.edu |
| Phone: | 734-647-2964 |
Subject:
| Subject ID: | SU000708 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Human |
Factors:
Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Construct |
|---|---|---|
| SA039079 | S00027766 | GCKR_52621 |
| SA039080 | S00027767 | GCKR_52621 |
| SA039081 | S00027768 | GCKR_52621 |
| SA039073 | S00027759 | GCKR(P446L) |
| SA039074 | S00027758 | GCKR(P446L) |
| SA039075 | S00027760 | GCKR(P446L) |
| SA039076 | S00027756 | GCKR(WT) |
| SA039077 | S00027755 | GCKR(WT) |
| SA039078 | S00027757 | GCKR(WT) |
| SA039082 | S00027764 | NT |
| SA039083 | S00027763 | NT |
| SA039084 | S00027765 | NT |
| SA039085 | S00027762 | PPP1R3B |
| SA039086 | S00027761 | PPP1R3B |
| SA039087 | S00027753 | Vector |
| SA039088 | S00027752 | Vector |
| SA039089 | S00027754 | Vector |
| Showing results 1 to 17 of 17 |
Collection:
| Collection ID: | CO000702 |
| Collection Summary: | - |
| Sample Type: | Cultured cells |
Treatment:
| Treatment ID: | TR000722 |
| Treatment Summary: | - |
Sample Preparation:
| Sampleprep ID: | SP000715 |
| Sampleprep Summary: | - |
| Sampleprep Protocol Filename: | A004_-_Shotgun_Lipidomics.pdf |
Combined analysis:
| Analysis ID | AN001056 | AN001057 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Shimadzu CTO-20A Nexera X2 | Shimadzu CTO-20A Nexera X2 |
| Column | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) |
| MS Type | ESI | ESI |
| MS instrument type | Triple TOF | Triple TOF |
| MS instrument name | ABI Sciex 5600+ TripleTOF | ABI Sciex 5600+ TripleTOF |
| Ion Mode | NEGATIVE | POSITIVE |
| Units | peak area normalized | peak area normalized |
Chromatography:
| Chromatography ID: | CH000748 |
| 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 |
MS:
| MS ID: | MS000951 |
| Analysis ID: | AN001056 |
| 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: | MS000952 |
| Analysis ID: | AN001057 |
| Instrument Name: | ABI Sciex 5600+ TripleTOF |
| Instrument Type: | Triple TOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | A004_-_Shotgun_Lipidomics.pdf |
