Summary of Study ST002724
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 PR001690. The data can be accessed directly via it's Project DOI: 10.21228/M8813V 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 | ST002724 |
| Study Title | Ceramides profile in HeLa overexpressing nSMase2 (SMPD3) |
| Study Type | Lipidomics LC-MS/MS |
| Study Summary | This study aim to determine which species of ceramides are modified by overexpression of the protein neutral sphingomyelinase 2 (nSMase2, gene SMPD3). HeLa cells were transfected with a plasmid containing V5-tagged nSMase2. Lipids were extracted after 24h after transfection and the sphingolipid profile was determined by LC-MS/MS. |
| Institute | State University of New York |
| Department | MEdicine |
| Laboratory | Daniel Canals |
| Last Name | Daniel |
| First Name | Canals |
| Address | 100 Nicolls Road |
| daniel.canals@stonybrook.edu | |
| Phone | 6312162903 |
| Submit Date | 2023-05-30 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-06-21 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001690 |
| Project DOI: | doi: 10.21228/M8813V |
| Project Title: | Ceramides profile in HeLa overexpressing nSMase2 (SMPD3) |
| Project Type: | Lipidomics |
| Project Summary: | This study aim to determine which species of ceramides are modified by overexpression of the protein neutral sphingomyelinase 2 (nSMase2, gene SMPD3). HeLa cells were transfected with a plasmid containing V5-tagged nSMase2. Lipids were extracted after 24h after transfection and the sphingolipid profile was determined by LC-MS/MS. |
| Institute: | Stony Brook University |
| Department: | Medicine |
| Laboratory: | Daniel Canals |
| Last Name: | Canals |
| First Name: | Daniel |
| Address: | 100 Nicolls Road, Stony Brook, NY, 11794, USA |
| Email: | daniel.canals@stonybrookmedicine.edu |
| Phone: | 6312162903 |
Subject:
| Subject ID: | SU002830 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Gender: | Female |
Factors:
Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Expression vector |
|---|---|---|
| SA273929 | AO_01 | Control |
| SA273930 | AO_03 | Control |
| SA273931 | AO_02 | Control |
| SA273932 | AO_15 | nSMase2-V5 |
| SA273933 | AO_13 | nSMase2-V5 |
| SA273934 | AO_14 | nSMase2-V5 |
| Showing results 1 to 6 of 6 |
Collection:
| Collection ID: | CO002823 |
| Collection Summary: | ATCC HeLa - CCL-2 |
| Sample Type: | Cultured cells |
Treatment:
| Treatment ID: | TR002839 |
| Treatment Summary: | Transfection with SPMD3 gene |
Sample Preparation:
| Sampleprep ID: | SP002836 |
| Sampleprep Summary: | Ceramides were extracted using 2:3 70% Isopropanol: EthylAcetate. See protocol.docx for details. |
| Processing Storage Conditions: | -20℃ |
Combined analysis:
| Analysis ID | AN004415 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Thermo Vanquish |
| Column | Spectra C8SR (150 × 3.0 mm, 3um) (#S-3C8SR-FJ) |
| MS Type | ESI |
| MS instrument type | Triple quadrupole |
| MS instrument name | Thermo Quantiva |
| Ion Mode | POSITIVE |
| Units | pmols |
Chromatography:
| Chromatography ID: | CH003314 |
| Instrument Name: | Thermo Vanquish |
| Column Name: | Spectra C8SR (150 × 3.0 mm, 3um) (#S-3C8SR-FJ) |
| Column Temperature: | 37 |
| Flow Gradient: | 0.5ml/min. 70%B. 5 min 90%B, 17 min 99%B, 26min 99%B, 26.5min 70% B. Stop at 35min. |
| Flow Rate: | 0.5ml/min |
| Solvent A: | 100% water; 0.2% formic acid ; 1mM ammonium formate |
| Solvent B: | 100% methanol; 0.2% formic acid ; 1mM ammonium formate |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS004162 |
| Analysis ID: | AN004415 |
| Instrument Name: | Thermo Quantiva |
| Instrument Type: | Triple quadrupole |
| MS Type: | ESI |
| MS Comments: | Acquisition and Processing were done using TraceFinder Software. |
| Ion Mode: | POSITIVE |
