Summary of Study ST001674
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 PR001077. The data can be accessed directly via it's Project DOI: 10.21228/M8GT3N This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST001674 |
| Study Title | Untargeted phospholipid analysis of HeLa silenced for or overexpressing GOLPH3 |
| Study Summary | A group of sequentially-acting enzymes operating at the branchpoint among sphingolipid synthetic pathways binds the Golgi-localised oncoprotein GOLPH3. GOLPH3 sorts these enzymes into vesicles for intra-Golgi retro-transport, acting as a component of the cisternae inter-conversion mechanisms. Through these effects, GOLPH3 controls the sub-Golgi localisation, and the lysosomal degradation rate of specific enzymes. Here we evaluated the impact of overexpressing or silencing GOLPH3 on the glycerophospholipid composition of HeLa cells by untargeted lipid analysis. |
| Institute | École polytechnique fédérale de Lausanne (EPFL) |
| Department | IBI |
| Laboratory | UPDANGELO |
| Last Name | D'Angelo |
| First Name | Giovanni |
| Address | Station 15, Lausanne, Vaud, 1015, Switzerland |
| giovanni.dangelo@epfl.ch | |
| Phone | +41 216934276 |
| Submit Date | 2021-01-29 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2021-02-26 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Combined analysis:
| Analysis ID | AN002732 |
|---|---|
| Analysis type | MS |
| Chromatography type | HILIC |
| Chromatography system | Shimadzu Prominence UFPLC xr system |
| Column | HILIC Kinetex (50 x 2.1mm,2.6um) |
| MS Type | ESI |
| MS instrument type | Orbitrap |
| MS instrument name | Thermo Orbitrap Elite Hybrid Ion Trap-Orbitrap |
| Ion Mode | POSITIVE |
| Units | intensities |
MS:
| MS ID: | MS002529 |
| Analysis ID: | AN002732 |
| Instrument Name: | Thermo Orbitrap Elite Hybrid Ion Trap-Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | MS data were acquired in full-scan mode at high resolution on a hybrid Orbitrap Elite (Thermo Fisher Scientific, Bremen, Germany). The system was operated at 240,000 resolution (m/z 400) with an AGC set at 1.0E6 and one microscan set at 10-ms maximum injection time. The heated electrospray source HESI II was operated in positive mode at a temperature of 90 C and a source voltage at 4.0KV. Sheath gas and auxiliary gas were set at 20 and 5 arbitrary units, respectively, while the transfer capillary temperature was set to 275 °C. Mass spectrometry data were acquired with LTQ Tuneplus2.7SP2 and treated with Xcalibur 4.0QF2 (Thermo Fisher Scientific). Lipid identification was carried out with Lipid Data Analyzer II (LDA v. 2.6.3, IGB-TUG Graz University) (Hartler et al., 2011). The LDA algorithm identifies peaks by their respective retention time, m/z and intensity. Care was taken to calibrate the instrument regularly to ensure a mass accuracy consistently lower than 3 ppm thereby leaving only few theoretical possibilities for elemental assignment. |
| Ion Mode: | POSITIVE |
