Summary of Study ST002452
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 PR001581. The data can be accessed directly via it's Project DOI: 10.21228/M8BD85 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 | ST002452 |
| Study Title | Lipidomic analysis of human brain from frontotemporal dementia cases of with GRN and C9orf72 mutations |
| Study Summary | Lipidomic analysis carried out on postmortem human brain tissue from cases with FTD carrying inherited mutations in the GRN gene, or repeat expansions in the C9orf72 gene, and age-matched control cases. Tissue was sampled from the heavily affected superior frontal grey and white matter, and less heavily affected superior parietal grey and white matter. |
| Institute | The University of Sydney |
| Last Name | Don |
| First Name | Anthony |
| Address | Office 3217, D17 Charles Perkins Centre, Camperdown, NSW, 2006, Australia |
| anthony.don@sydney.edu.au | |
| Phone | +61286275578 |
| Submit Date | 2023-01-19 |
| Num Groups | 3 |
| Total Subjects | 28 |
| Num Males | 13 |
| Num Females | 15 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzXML |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-03-01 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Combined analysis:
| Analysis ID | AN004007 | AN004008 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Thermo Vanquish | Thermo Vanquish |
| Column | Waters ACQUITY UPLC CSH C18 (100 x 2.1mm,1.7um) | Waters ACQUITY UPLC CSH C18 (100 x 2.1mm,1.7um) |
| MS Type | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive HF-X Orbitrap | Thermo Q Exactive HF-X Orbitrap |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | pmoles/mg protein | pmoles/mg protein |
MS:
| MS ID: | MS003754 |
| Analysis ID: | AN004007 |
| Instrument Name: | Thermo Q Exactive HF-X Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | MS data was acquired in full scan/data-dependent MS2 (full scan resolution 60,000 FWHM, scan range 220–1600 m/z) in both positive and negative ionization modes. The ten most abundant ions in each cycle were subjected to MS2, with an isolation window of 1.4 m/z, collision energy 30 eV, resolution 17,500 FWHM, maximum integration time 110 ms and dynamic exclusion window 10 s. An exclusion list of background ions was used based on a solvent blank. An inclusion list of the [M+H]+ and [M-H]- ions was used for all internal standards. LipidSearch software v4.2 (Thermo Fisher) was used for lipid annotation, chromatogram alignment, and peak integration from extracted ion chromatograms. Lipid annotation was based on precursor and product ions in both positive and negative ion mode. Individual lipids were expressed as ratios to an internal standard specific for each lipid class, then multiplied by the amount of internal standard added to produce a molar amount of each lipid per sample, which was normalised to protein amount in each sample. |
| Ion Mode: | POSITIVE |
| MS ID: | MS003755 |
| Analysis ID: | AN004008 |
| Instrument Name: | Thermo Q Exactive HF-X Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | MS data was acquired in full scan/data-dependent MS2 (full scan resolution 60,000 FWHM, scan range 220–1600 m/z) in both positive and negative ionization modes. The ten most abundant ions in each cycle were subjected to MS2, with an isolation window of 1.4 m/z, collision energy 30 eV, resolution 17,500 FWHM, maximum integration time 110 ms and dynamic exclusion window 10 s. An exclusion list of background ions was used based on a solvent blank. An inclusion list of the [M+H]+ and [M-H]- ions was used for all internal standards. LipidSearch software v4.2 (Thermo Fisher) was used for lipid annotation, chromatogram alignment, and peak integration from extracted ion chromatograms. Lipid annotation was based on precursor and product ions in both positive and negative ion mode. Individual lipids were expressed as ratios to an internal standard specific for each lipid class, then multiplied by the amount of internal standard added to produce a molar amount of each lipid per sample, which was normalised to protein amount in each sample. |
| Ion Mode: | NEGATIVE |
