Summary of Study ST004308
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 PR002724. The data can be accessed directly via it's Project DOI: 10.21228/M8JP0R 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 | ST004308 |
| Study Title | The Impact of IRF7 Overexpression on the Lipidome in THP1 Cells |
| Study Summary | THP-1 cells were cultured in RPMI-1640 medium and subjected to lentiviral transduction for 48 hours. Cells were divided into two treatment groups: one transduced with a control lentivirus and the other with a human IRF7-overexpressing lentivirus. The transduction was performed at a multiplicity of infection (MOI) of 30 in the presence of 8 μg/mL Polybrene. Simultaneously, all groups were treated with PMA to induce adhesion and differentiation into macrophage-like cells. The experiment was conducted with six biological replicates (N=6) per group. Following the 48-hour treatment period, successful cell adhesion and morphological differentiation were confirmed by microscopic examination. The differentiated cells were then harvested by trypsinization. The resulting cell pellets were collected for subsequent metabolomic analysis, which aims to identify the metabolic reprogramming induced by IRF7 overexpression in human macrophages. |
| Institute | Zhejiang University |
| Last Name | Pei |
| First Name | Yumeng |
| Address | Wu Tong Road Number 366, Hang Zhou, Zhejiang, China |
| 0623B01@zju.edu.cn | |
| Phone | (0571)87236114 |
| Submit Date | 2025-10-22 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2025-10-28 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR002724 |
| Project DOI: | doi: 10.21228/M8JP0R |
| Project Title: | The Impact of IRF7 Overexpression on the Lipidome in THP1 Cells |
| Project Summary: | The polarization of macrophages into distinct functional phenotypes, namely the pro-inflammatory M1 and the pro-reparative M2 states, is a critical determinant in immune response and disease pathogenesis. This process is underpinned by profound metabolic reprogramming, with the lipidome being increasingly recognized as a key regulator and readout of macrophage function. Interferon regulatory factor 7 (IRF7), a transcription factor well-known for its master role in type I interferon signaling, has recently been implicated in immune cell differentiation and metabolic regulation. However, its specific function in governing the lipid metabolic landscape during human macrophage polarization remains largely unexplored. The primary goal of this project was to define the specific impact of IRF7 overexpression on the lipidome of human macrophages and to elucidate its role in polarization. We utilized a model of THP-1-derived macrophages to test the central hypothesis that enforced expression of IRF7 drives a distinct lipid remodeling program, which in turn contributes to a specific macrophage polarization phenotype. This study aimed to provide a comprehensive, untargeted lipidomic profile following IRF7 overexpression, thereby bridging the gap between IRF7 signaling and metabolic regulation in macrophages. Our lipidomic analysis successfully identified a unique and significant alteration in the lipid profile of IRF7-overexpressing macrophages. We observed specific shifts in key lipid classes, which are consistent with the M2-like macrophages lipidomic profile. These findings provide the first evidence, to our knowledge, that IRF7 is a potent regulator of lipid metabolism in human macrophages. |
| Institute: | Zhejiang University |
| Last Name: | Pei |
| First Name: | Yumeng |
| Address: | Wu Tong Road Number 366, Hang Zhou, Zhejiang, China |
| Email: | 0623B01@zju.edu.cn |
| Phone: | (0571)87236114 |
Subject:
| Subject ID: | SU004462 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment | Sample source |
|---|---|---|---|
| SA505438 | NC_1 | Control | THP-1 cell |
| SA505439 | NC_2 | Control | THP-1 cell |
| SA505440 | NC_3 | Control | THP-1 cell |
| SA505441 | NC_4 | Control | THP-1 cell |
| SA505442 | NC_5 | Control | THP-1 cell |
| SA505443 | NC_6 | Control | THP-1 cell |
| SA505444 | IRF7_1 | IRF7 | THP-1 cell |
| SA505445 | IRF7_2 | IRF7 | THP-1 cell |
| SA505446 | IRF7_3 | IRF7 | THP-1 cell |
| SA505447 | IRF7_4 | IRF7 | THP-1 cell |
| SA505448 | IRF7_5 | IRF7 | THP-1 cell |
| SA505449 | IRF7_6 | IRF7 | THP-1 cell |
| Showing results 1 to 12 of 12 |
Collection:
| Collection ID: | CO004455 |
| Collection Summary: | THP-1 cells were harvested at the logarithmic growth phase. After lentivirus-mediated overexpression of IRF7, the culture medium was removed by centrifugation. The cell pellets were then collected for subsequent lipidomic analysis. |
| Sample Type: | Mononuclear cells |
Treatment:
| Treatment ID: | TR004471 |
| Treatment Summary: | THP-1 cells were harvested at the logarithmic growth phase. Using lentivirus to overexpress of IRF7, then add PMA to induce differentiation into macrophages. |
Sample Preparation:
| Sampleprep ID: | SP004468 |
| Sampleprep Summary: | Following IRF7 overexpression and PMA-induced differentiation into macrophages, the culture supernatant was completely removed. Adherent cells were harvested by trypsinization and the reaction was neutralized with complete culture medium. The cell suspension was transferred to a centrifuge tube and pelleted by centrifugation at 300 × g for 5 minutes at 4°C. The resulting supernatant was carefully aspirated and discarded. The cell pellet was then washed twice with ice-cold, 1X phosphate-buffered saline (PBS) to remove any residual medium components and metabolites that could interfere with the analysis. After the final wash, the PBS was thoroughly removed. The purified cell pellet was immediately flash-frozen in liquid nitrogen to quench all metabolic activity and preserve the metabolic profile intact. The frozen pellet was stored at -80°C until further metabolomic extraction and analysis. |
Chromatography:
| Chromatography ID: | CH005446 |
| Instrument Name: | Thermo Vanquish UHPLC |
| Column Name: | Thermo Accucore C30 (150 x 2.1 mm, 2.6 μm) |
| Column Temperature: | 40°C |
| Flow Gradient: | 30% B, initial; 30% B, 2min; 43% B, 5 min；55% B, 5.1 min；70% B, 11 min； 99%B, 16 min;30%B, 18.1min. |
| Flow Rate: | 0.35 mL/min |
| Solvent A: | 60% Acetonitrile/40% Water; 10 mM ammonium acetate; 0.1% formic acid |
| Solvent B: | 10% Acetonitrile/90% Isopropanol; 10 mM ammonium acetate; 0.1% formic acid |
| Chromatography Type: | Reversed phase |
Analysis:
| Analysis ID: | AN007170 |
| Analysis Type: | MS |
| Chromatography ID: | CH005446 |
| Has Mz: | 1 |
| Has Rt: | 1 |
| Rt Units: | Minutes |
| Results File: | ST004308_AN007170_Results.txt |
| Units: | μg/g |
| Analysis ID: | AN007171 |
| Analysis Type: | MS |
| Chromatography ID: | CH005446 |
| Has Mz: | 1 |
| Has Rt: | 1 |
| Rt Units: | Minutes |
| Results File: | ST004308_AN007171_Results.txt |
| Units: | μg/g |
