Summary of Study ST002160
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 PR001373. The data can be accessed directly via it's Project DOI: 10.21228/M87Q56 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 | ST002160 |
| Study Title | Global metabolomics analysis of neutrophils isolated from tumor |
| Study Summary | Pathologically activated neutrophils (PMN), termed myeloid-derived suppressor cells (PMN-MDSCs), are major negative regulators of anti-tumor immunity. The mechanisms responsible for the pathological activation of neutrophils upon infiltration into tumors are not well defined, thus limiting the selective targeting of these cells. Tumor cells and immune cells engage in bi-directional manipulation of their respective metabolism, thereby altering cell function to facilitate tumor progression. Targeting the metabolism of responding immune cells can improve cancer treatment when combined with existing therapeutic strategies. Here, we investigated the role of metabolism in the immunoinhibitory actions of tumor PMN-MDSCs. |
| Institute | Wistar Institute |
| Last Name | Nefedova |
| First Name | Yulia |
| Address | 3601 Spruce St, Philadelphia, PA 19104 |
| ynefedova@wistar.org | |
| Phone | 215-495-6952 |
| Submit Date | 2022-05-04 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-05-05 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001373 |
| Project DOI: | doi: 10.21228/M87Q56 |
| Project Title: | The study of metabolomics in tumor PMN-MDSCs |
| Project Summary: | Pathologically activated neutrophils (PMN), termed myeloid-derived suppressor cells (PMN-MDSCs), are major negative regulators of anti-tumor immunity. The mechanisms responsible for the pathological activation of neutrophils upon infiltration into tumors are not well defined, thus limiting the selective targeting of these cells. Tumor cells and immune cells engage in bi-directional manipulation of their respective metabolism, thereby altering cell function to facilitate tumor progression. Targeting the metabolism of responding immune cells can improve cancer treatment when combined with existing therapeutic strategies. Here, we investigated the role of metabolism in the immunoinhibitory actions of tumor PMN-MDSCs. |
| Institute: | The Wistar Institute |
| Last Name: | Nefedova |
| First Name: | Yulia |
| Address: | 3601 Spruce St, Philadelphia, PA 19104 |
| Email: | 215-495-6952 |
| Phone: | ynefedova@wistar.org |
Subject:
| Subject ID: | SU002246 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Species Group: | Mammals |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Alox12/15 Status |
|---|---|---|
| SA207153 | KO-1 | KO |
| SA207154 | KO-2 | KO |
| SA207155 | KO-3 | KO |
| SA207160 | QC-2 | n/a |
| SA207161 | QC-3 | n/a |
| SA207162 | QC-1 | n/a |
| SA207156 | WT-4 | WT |
| SA207157 | WT-3 | WT |
| SA207158 | WT-2 | WT |
| SA207159 | WT-1 | WT |
| Showing results 1 to 10 of 10 |
Collection:
| Collection ID: | CO002239 |
| Collection Summary: | Single-cell suspensions from tumor tissues were prepared using Mouse Tumor Dissociation Kit according to the manufacturer’s recommendation (Miltenyi). PMN-MDSCs were sorted using FACS Aria Ⅱ (CD11b+Ly6G+Ly6Clo). |
| Sample Type: | Tumor cells |
Treatment:
| Treatment ID: | TR002258 |
| Treatment Summary: | n/a |
Sample Preparation:
| Sampleprep ID: | SP002252 |
| Sampleprep Summary: | Briefly, polar metabolites were extracted from 1 million isolated neutrophils with 50 µl ice-cold 80% methanol (20 million cells/ml final), and deproteinated supernatants were stored at -80 °C prior to analysis. A quality control (QC) sample was generated by pooling equal volumes of all samples after extraction. |
Chromatography:
| Chromatography ID: | CH002613 |
| Chromatography Summary: | Hydrophilic interaction liquid chromatography (HILIC) was performed at 0.2 ml/min on a ZIC-pHILIC column (2.1 mm × 150 mm, EMD Millipore) at 45 °C. Solvent A was 20 mM ammonium carbonate, 0.1% ammonium hydroxide, pH 9.2, and solvent B was acetonitrile. The gradient was 85% B for 2 min, 85% B to 20% B over 15 min, 20% B to 85% B over 0.1 min, and 85% B for 8.9 min. The autosampler was held at 4 °C. For each analysis, 4 µl of sample was injected. |
| Instrument Name: | Thermo Vanquish |
| Column Name: | SeQuant ZIC-HILIC (150 x 2.1mm,5um) |
| Flow Gradient: | 85% B for 2 min, 85% B to 20% B over 15 min, 20% B to 85% B over 0.1 min, and 85% B for 8.9 min. |
| Solvent A: | 100% water; 20 mM ammonium carbonate; 0.1% ammonium hydroxide, pH 9.4 |
| Solvent B: | 100% acetonitrile |
| Chromatography Type: | HILIC |
Analysis:
| Analysis ID: | AN003539 |
| Analysis Type: | MS |
| Chromatography ID: | CH002613 |
| Num Factors: | 3 |
| Num Metabolites: | 166 |
| Rt Units: | Minutes |
| Units: | Normalized MS Peak Area |
