|
| Status |
Public on Jan 11, 2022 |
| Title |
Multi-omics approaches reveal TNF-mediated inhibition of tissue reparative macrophages is via a gene-selective transcriptional mechanism (ATAC-Seq) |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Anti-TNF therapies are a core anti-inflammatory approach for chronic diseases such as rheumatoid arthritis and Crohn’s Disease. Previously, we and others found that TNF blocks the emergence and function of alternatively-activated or M2 macrophages involved in wound healing and tissue-reparative functions. Conceivably, anti-TNF drugs could mediate their protective effects in part by an altered balanced of macrophage activity. To understand the mechanistic basis of how TNF regulates tissue-reparative macrophages we used RNAseq, scRNAseq, ATACseq, time-resolved phospho-proteomics, gene-specific approaches, metabolic analysis and signaling pathway deconvolution. Our findings reveal that TNF controls tissue-reparative macrophage gene expression in a highly gene-specific way dependent on JNK signaling. We uncover principles of the selectively inhibition by TNF via the type 1 TNF receptor on specific populations of alternative activated macrophages.
|
| |
|
| Overall design |
Chromatin accessibility profiles of wild-type BMDMs stimulated with IL4/IL13 or IL4/IL13 + TNF for 24h from 3 separate mice.
|
| |
|
| Contributor(s) |
Dichtl S, Sanin DE, Pearce EJ, Murray PJ |
| Citation(s) |
35027468 |
| Submission date |
Oct 05, 2021 |
| Last update date |
Apr 19, 2022 |
| Contact name |
Assa Yeroslaviz |
| E-mail(s) |
yeroslaviz@biochem.mpg.de
|
| Organization name |
Max-Planck-Institute for biochemistry
|
| Department |
computational Biology
|
| Street address |
Am Klopferspitz 18
|
| City |
Martinsried |
| State/province |
Bavaria |
| ZIP/Postal code |
82152 |
| Country |
Germany |
| |
|
| Platforms (1) |
| GPL21493 |
Illumina HiSeq 3000 (Mus musculus) |
|
| Samples (9)
|
|
| This SubSeries is part of SuperSeries: |
| GSE185380 |
Multi-omics approaches reveal TNF-mediated inhibition of tissue reparative macrophages is via a gene-selective transcriptional mechanism |
|
| Relations |
| BioProject |
PRJNA768838 |
| SRA |
SRP340126 |
Less...
More...