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| Status |
Public on Aug 08, 2023 |
| Title |
PD-1 instructs a tumor suppressive metabolic program to restrain AP-1 activity in T cell lymphoma [ATAC-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
To dissect T cell lymphoma pathogenesis, we previously engineered a genetically controllable murine model of human T-NHL based on tamoxifen-inducible irreversible expression of the T-NHL oncogene ITK-SYK, which enforces strong oncogenic TCR signaling.
Three days after ITK-SYK expression, we purified the oncogene-expressing cells by fluorescence-activated cell sorting (FACS) for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq).
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| |
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| Overall design |
Comparative footprint analysis of ATAC-seq data for ITK-SYK expressing T cells with and without PD-1 deletion (ex vivo and in presence of the ACLY inhibitor BMS-303141).
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| |
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| Contributor(s) |
Wartewig T, Ruland J |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Sep 12, 2022 |
| Last update date |
Aug 08, 2023 |
| Contact name |
Tim Wartewig |
| E-mail(s) |
tim.wartewig@yale.edu
|
| Phone |
2034354232
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| Organization name |
TUM
|
| Department |
Clinical Chemistry
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| Lab |
Ruland Lab
|
| Street address |
Einsteinstrasse 25
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| City |
Munich |
| ZIP/Postal code |
81675 |
| Country |
Germany |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (14)
|
| GSM6574109 |
ITK-SYK+ CD4+ T cells PD1 WT ex vivo replicate 1 |
| GSM6574110 |
ITK-SYK+ CD4+ T cells PD1 WT ex vivo replicate 2 |
| GSM6574111 |
ITK-SYK+ CD4+ T cells PD1 WT ex vivo replicate 3 |
| GSM6574112 |
ITK-SYK+ CD4+ T cells PD1 KO ex vivo replicate 1 |
| GSM6574113 |
ITK-SYK+ CD4+ T cells PD1 KO ex vivo replicate 2 |
| GSM6574114 |
ITK-SYK+ CD4+ T cells PD1 KO ex vivo replicate 3 |
| GSM6574115 |
ITK-SYK+ CD4+ T cells PD1 WT DMSO replicate 1 |
| GSM6574116 |
ITK-SYK+ CD4+ T cells PD1 WT DMSO replicate 2 |
| GSM6574117 |
ITK-SYK+ CD4+ T cells PD1 KO DMSO replicate 1 |
| GSM6574118 |
ITK-SYK+ CD4+ T cells PD1 KO DMSO replicate 2 |
| GSM6574119 |
ITK-SYK+ CD4+ T cells PD1 WT BMS replicate 1 |
| GSM6574120 |
ITK-SYK+ CD4+ T cells PD1 WT BMS replicate 2 |
| GSM6574121 |
ITK-SYK+ CD4+ T cells PD1 KO BMS replicate 1 |
| GSM6574122 |
ITK-SYK+ CD4+ T cells PD1 KO BMS replicate 2 |
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| Relations |
| BioProject |
PRJNA879454 |
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