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.

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Study IDST001363
Study TitleMonophasic lipidomics extraction in cancer cell lines
Study TypeLipidomics
Study SummaryWe 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 NameRodriguez Blanco
First NameGiovanny
AddressCrewe Road South, Edinburgh, Midlothian, EH42XU, United Kingdom
Emailg.blanco@ed.ac.uk
Phone00447526056849
Submit Date2020-04-16
Raw Data AvailableYes
Raw Data File Type(s).raw
Analysis Type DetailLC-MS
Release Date2020-10-28
Release Version1
Giovanny Rodriguez Blanco Giovanny Rodriguez Blanco
https://dx.doi.org/10.21228/M8M98M
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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
SA099067VV_101_HEpG2_BuMe_3BuMe
SA099068VV_99_HEpG2_BuMe_1BuMe
SA099069VV_100_HEpG2_BuMe_2BuMe
SA099070VV_94_HEpG2_scr_BuMe_2BuMe_scr
SA099071VV_95_HEpG2_scr_BuMe_3BuMe_scr
SA099072VV_93_HEpG2_scr_BuMe_1BuMe_scr
SA099073VV_92_HEpG2_CHCl3_3CHCl3
SA099074VV_91_HEpG2_CHCl3_2CHCl3
SA099075VV_90_HEpG2_CHCl3_1CHCl3
SA099076VV_104_HEpG2_IPA_3IPA
SA099077VV_103_HEpG2_IPA_2IPA
SA099078VV_102_HEpG2_IPA_1IPA
SA099079VV_96_HEpG2_scr_IPA_1IPA_scr
SA099080VV_98_HEpG2_scr_IPA_3IPA_scr
SA099081VV_97_HEpG2_scr_IPA_2IPA_scr
SA099082VV_88_HEpG2_MTBE_2MTBE
SA099083VV_87_HEpG2_MTBE_1MTBE
SA099084VV_89_HEpG2_MTBE_3MTBE
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
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