Summary of Study ST001363
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 PR000929. The data can be accessed directly via it's Project DOI: 10.21228/M8M98M 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 | ST001363 |
| Study Title | Monophasic lipidomics extraction in cancer cell lines |
| Study Type | Lipidomics |
| Study Summary | We performed a comprehensive characterization of a monophasic extraction method in cancer cell lines. We used pharmacological perturbation on HepG2 cells to identify changes in different lipid families. We optimized the MS parameters, the chromatography and the data analysis to perform rapid and robust lipidomics analysis from cell lines. |
| Institute | Institute of Genetics and Molecular Medicine |
| Last Name | Rodriguez Blanco |
| First Name | Giovanny |
| Address | Crewe Road South, Edinburgh, Midlothian, EH42XU, United Kingdom |
| g.blanco@ed.ac.uk | |
| Phone | 00447526056849 |
| Submit Date | 2020-04-16 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2020-10-28 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000929 |
| Project DOI: | doi: 10.21228/M8M98M |
| Project Title: | Monophasic lipidomics extraction in cancer cell lines |
| Project Type: | Lipidomics |
| Project Summary: | We performed a comprehensive characterization of a monophasic extraction method in cancer cell lines. We used pharmacological perturbation on HepG2 cells to identify changes in different lipid families. We optimized the MS parameters, the chromatography and the data analysis to perform rapid and robust lipidomics analysis from cell lines. |
| Institute: | Institute of Genetics and Molecular Medicine |
| Laboratory: | Mass Spec Lab |
| Last Name: | Rodriguez Blanco |
| First Name: | Giovanny |
| Address: | Crewe Road South, Edinburgh, Midlothian, EH42XU, United Kingdom |
| Email: | g.blanco@ed.ac.uk |
| Phone: | 00447526056849 |
Subject:
| Subject ID: | SU001437 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Solvent |
|---|---|---|
| SA099067 | VV_101_HEpG2_BuMe_3 | BuMe |
| SA099068 | VV_99_HEpG2_BuMe_1 | BuMe |
| SA099069 | VV_100_HEpG2_BuMe_2 | BuMe |
| SA099070 | VV_94_HEpG2_scr_BuMe_2 | BuMe_scr |
| SA099071 | VV_95_HEpG2_scr_BuMe_3 | BuMe_scr |
| SA099072 | VV_93_HEpG2_scr_BuMe_1 | BuMe_scr |
| SA099073 | VV_92_HEpG2_CHCl3_3 | CHCl3 |
| SA099074 | VV_91_HEpG2_CHCl3_2 | CHCl3 |
| SA099075 | VV_90_HEpG2_CHCl3_1 | CHCl3 |
| SA099076 | VV_104_HEpG2_IPA_3 | IPA |
| SA099077 | VV_103_HEpG2_IPA_2 | IPA |
| SA099078 | VV_102_HEpG2_IPA_1 | IPA |
| SA099079 | VV_96_HEpG2_scr_IPA_1 | IPA_scr |
| SA099080 | VV_98_HEpG2_scr_IPA_3 | IPA_scr |
| SA099081 | VV_97_HEpG2_scr_IPA_2 | IPA_scr |
| SA099082 | VV_88_HEpG2_MTBE_2 | MTBE |
| SA099083 | VV_87_HEpG2_MTBE_1 | MTBE |
| SA099084 | VV_89_HEpG2_MTBE_3 | MTBE |
| Showing results 1 to 18 of 18 |
Collection:
| Collection ID: | CO001432 |
| Collection Summary: | Lipids were extracted either with a biphasic extraction with CHCl3 or MTBE, or with monophasic extractions of IPA or a mixture 1:1 of butanol-methanol (BuMe) |
| Sample Type: | HepG2 cells |
Treatment:
| Treatment ID: | TR001452 |
| Treatment Summary: | In this experiment we are not treating cells with any drug. In contrast, we are evaluating extraction efficiency of different solvents. |
Sample Preparation:
| Sampleprep ID: | SP001445 |
| Sampleprep Summary: | Monophasic extraction straight from cell plates using BuMe or IPA. |
Combined analysis:
| Analysis ID | AN002269 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Thermo Dionex Ultimate 3000 |
| Column | Waters Acquity CSH C18 (100 x 2.1mm,1.7um) |
| MS Type | ESI |
| MS instrument type | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap |
| Ion Mode | POSITIVE |
| Units | Normalised peak area |
Chromatography:
| Chromatography ID: | CH001668 |
| Instrument Name: | Thermo Dionex Ultimate 3000 |
| Column Name: | Waters Acquity CSH C18 (100 x 2.1mm,1.7um) |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS002113 |
| Analysis ID: | AN002269 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | See Methods file. |
| Ion Mode: | POSITIVE |
