Summary of Study ST000898
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 PR000624. The data can be accessed directly via it's Project DOI: 10.21228/M8109M 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 | ST000898 |
| Study Title | TAp73 is a marker of glutamine addiction in medulloblastoma |
| Study Type | siRNA constructs targeting p73 (ID: 2671-AMBION) and a non-targeting control siRNA (scramble) were transfected with 10 pM siRNA with lipofectamine 3000 according to the supplier’s protocol for 48 hours |
| Study Summary | Metabolically-targeted therapies hold the promise of offering an effective and less toxic treatment for tumours including medulloblastoma, the most common malignant brain tumour of childhood. Current treatment relies on the sensitivity of these tumours to DNA damage that was discovered more than 50 years ago. Finding new tumour-specific susceptibilities to complement sensitivity to DNA damage is key to developing new more effective adjuvant therapies. The specific metabolic program of tumours is an attractive vulnerability, as restriction diet are low cost and easy to implement. Here, we present compelling pre-clinical evidence that glutamine restriction diet can be used as an adjuvant treatment for p73-expressing medulloblastoma. |
| Institute | Queen Mary University of London |
| Department | Blizard Institute |
| Laboratory | Centre for Genomics and Child Health |
| Last Name | Marino |
| First Name | Silvia |
| Address | 4 Newark Street, E1 2AT, London |
| s.marino@qmul.ac.uk | |
| Phone | +44 20 7882 2360 |
| Submit Date | 2017-08-24 |
| Num Groups | 2 |
| Total Subjects | 18 |
| Study Comments | We include 3 biological replicate with 3 technical replicates for each condition. |
| Raw Data Available | Yes |
| Analysis Type Detail | LC-MS |
| Release Date | 2017-11-20 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Combined analysis:
| Analysis ID | AN001460 | AN001461 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | HILIC | HILIC |
| Chromatography system | Waters Acquity I-Class | Waters Acquity I-Class |
| Column | Waters Acquity BEH Amide (50 x 2.1mm,1.7um) | Waters Acquity BEH Amide (50 x 2.1mm,1.7um) |
| MS Type | ESI | ESI |
| MS instrument type | QTOF | QTOF |
| MS instrument name | Waters Synapt G2 QTOF | Waters Synapt G2 QTOF |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | Peak Area | Peak Area |
MS:
| MS ID: | MS001348 |
| Analysis ID: | AN001460 |
| Instrument Name: | Waters Synapt G2 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | The raw data was converted to NetCDF files using the software DataBridge (Masslynx version 4.1, Waters). Peak detection and retention time alignment was performed using the R based software XCMS (Smith et al. 2006). The centWave function was used for peak detection and the function parameters were set as follows; the maximal deviation in m/z between scans was set to 8 ppm, the maximal and minimal peakwidth was set to 5 and 25 s respectively and the signal to noise ratio cutoff was set to 10. Retention time correction was performed using the “obiwarp” function. |
| Ion Mode: | POSITIVE |
| Capillary Temperature: | 500°C |
| Capillary Voltage: | 1 kV |
| Collision Energy: | 20- 45 eV collision ramp, MSE acquistion |
| Source Temperature: | 120°C |
| Dataformat: | NetCDF |
| Scan Range Moverz: | m/z 50-800 |
| MS ID: | MS001349 |
| Analysis ID: | AN001461 |
| Instrument Name: | Waters Synapt G2 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | The raw data was converted to NetCDF files using the software DataBridge (Masslynx version 4.1, Waters). Peak detection and retention time alignment was performed using the R based software XCMS (Smith et al. 2006). The centWave function was used for peak detection and the function parameters were set as follows; the maximal deviation in m/z between scans was set to 8 ppm, the maximal and minimal peakwidth was set to 5 and 25 s respectively and the signal to noise ratio cutoff was set to 10. Retention time correction was performed using the “obiwarp” function. |
| Ion Mode: | NEGATIVE |
| Capillary Temperature: | 450°C |
| Capillary Voltage: | 2 kV |
| Collision Energy: | 20- 45 eV collision ramp, MSE acquistion |
| Source Temperature: | 120°C |
| Dataformat: | NetCDF |
| Scan Range Moverz: | m/z 50-800 |
