Summary of Study ST002071
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 PR001313. The data can be accessed directly via it's Project DOI: 10.21228/M80H5Z 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 | ST002071 |
| Study Title | Metabolic profiling of mouse CD27+ and CD27- gammadelta T cells |
| Study Summary | Cultured CD27+ and CD27- gammadelta T cells were labeled with 13C-glucose for 24 h. Cells were harvested for LC-MS analysis |
| Institute | University of Louisville |
| Last Name | Zhang |
| First Name | Xiang |
| Address | Shumaker Research Bld 349, Louisville, KY 40292 |
| xiang.zhang@louisville.edu | |
| Phone | 502-852-8878 |
| Submit Date | 2022-01-07 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2022-02-14 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001313 |
| Project DOI: | doi: 10.21228/M80H5Z |
| Project Title: | Metabolic profiling of mouse CD27+ and CD27- gammadelta T cells |
| Project Type: | Research |
| Project Summary: | The objective of this study is to define metabolic profiles of innate mouse CD27+ and CD27- gammadelta T cells. |
| Institute: | University of Louisville |
| Last Name: | Yan |
| First Name: | Jun |
| Address: | 505 S Hancock Street, Louisville, KY 40245 |
| Email: | jun.yan@louisville.edu |
| Phone: | 502 852-3628 |
| Funding Source: | R01AI161106 |
Subject:
| Subject ID: | SU002153 |
| Subject Type: | Cultured cells |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Age Or Age Range: | 6-8 weeks old |
| Weight Or Weight Range: | 15-20 grams |
| Gender: | Male and female |
| Cell Strain Details: | C57Bl/6 |
Factors:
Subject type: Cultured cells; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Cell type |
|---|---|---|
| SA194777 | 0412_CD27-_Labeled_2 | CD27- |
| SA194778 | 0426_CD27-_Labeled_1 | CD27- |
| SA194779 | 0426_CD27-_Labeled_2 | CD27- |
| SA194780 | 0426_CD27-_Labeled_3 | CD27- |
| SA194781 | 0412_CD27-_Labeled_1 | CD27- |
| SA194771 | 0412_CD27+_Labeled_3 | CD27+ |
| SA194772 | 0426_CD27+_Labeled_1 | CD27+ |
| SA194773 | 0426_CD27+_Labeled_3 | CD27+ |
| SA194774 | 0412_CD27+_Labeled_2 | CD27+ |
| SA194775 | 0426_CD27+_Labeled_2 | CD27+ |
| SA194776 | 0412_CD27+_Labeled_1 | CD27+ |
| Showing results 1 to 11 of 11 |
Collection:
| Collection ID: | CO002146 |
| Collection Summary: | polarized CD27+ and CD27- γδ T cells were cultured in glucose-free DMEM supplemented with 10 mM [U-13C]-glucose and 10% dialyzed FBS for 24 h. The cells were rinsed in cold PBS and quenched using a mixture containing 2 mL acetonitrile and 1.5 mL H2O. After adding 1 mL chloroform, the sample was homogenized and centrifuged at 3,000 rpm, 4 oC for 20 min. The top layer was transferred to a new tube and lyophilized. The dried sample was then dissolved in 100 µL 20% acetonitrile and vigorously vortex-mixed for 3 min. After centrifugation at 14,000 rpm, 4oC for 20 min, the supernatant was collected for two-dimensional liquid chromatography-mass spectrometry (2DLC-MS) analysis. |
| Sample Type: | T-cells |
Treatment:
| Treatment ID: | TR002165 |
| Treatment Summary: | Cells were not treated with any drugs |
Sample Preparation:
| Sampleprep ID: | SP002159 |
| Sampleprep Summary: | The cells were rinsed in cold PBS and quenched using a mixture containing 2 mL acetonitrile and 1.5 mL H2O. After adding 1 mL chloroform, the sample was homogenized and centrifuged at 3,000 rpm, 4 oC for 20 min. The top layer was transferred to a new tube and lyophilized. The dried sample was then dissolved in 100 µL 20% acetonitrile and vigorously vortex-mixed for 3 min. After centrifugation at 14,000 rpm, 4oC for 20 min, the supernatant was collected for two-dimensional liquid chromatography-mass spectrometry (2DLC-MS) analysis. All samples were analyzed on a Thermo Q Exactive HF Hybrid Quadrupole-Orbitrap Mass Spectrometer coupled with a Thermo DIONEX UltiMate 3000 HPLC system (Thermo Fisher Scientific, Waltham, MA, USA). The UltiMate 3000 HPLC system was equipped with a reversed phase chromatography (RPC) column and a hydrophilic interaction chromatography (HILIC) column. The two columns were configured in parallel 2DLC mode. |
Combined analysis:
| Analysis ID | AN003376 |
|---|---|
| Analysis type | MS |
| Chromatography type | HILIC |
| Chromatography system | Q Exactive |
| Column | SeQuant ZIC-cHILIC |
| MS Type | ESI |
| MS instrument type | Orbitrap |
| MS instrument name | Thermo Exactive Plus Orbitrap |
| Ion Mode | NEGATIVE |
| Units | None |
Chromatography:
| Chromatography ID: | CH002495 |
| Chromatography Summary: | We use parallel 2DLC-MS, one column is HILIC and another is RP. |
| Instrument Name: | Q Exactive |
| Column Name: | SeQuant ZIC-cHILIC |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS003143 |
| Analysis ID: | AN003376 |
| Instrument Name: | Thermo Exactive Plus Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | A pooled samples for each group was detected under both positive and negative mode using 20 eV, 40eV and 60 eV. The recorded MS/MS spectrum was used for compound identification. For metabolites quantification, FullMS data of each sample was conducted under both positive and negative mode, XCMS software was used for peak deconvolution and our in-house software, MetSign was used for assignment, alignment, and statistical analysis |
| Ion Mode: | NEGATIVE |
