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| Status |
Public on May 30, 2024 |
| Title |
The transcriptional landscape associated with the deletion of Regnase-1 [ATAC-Seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Having identified the crucial role of IFN-γ in anti-tumor immunity of Reg-1ΔNK, we attempted to elucidate the mechanism underlying the regulation of Ifng in the context of Regnase-1 deletion. Despite the notable increase in Ifng mRNA expression in Reg-1ΔNK-NK cells, Ifng was not a direct substrate of Regnase-1. However, the production of the IFN-γ was further enhanced upon stimulation with IL-12/18. We proposed that modifications may have occurred in the transcriptional regulation of Ifng in Reg-1ΔNK-NK cells.
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| Overall design |
To elucidate the transcriptional landscape associated with the deletion of Regnase-1, we performed paired assays for transposase-accessible chromatin sequencing (ATAC-seq) and RNA sequencing (RNA-seq) using Reg-1fl/fl- and Reg-1ΔNK-NK cells treated with or without IL-12/18.
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| Web link |
https://pubmed.ncbi.nlm.nih.gov/38821052/
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| Citation(s) |
38821052 |
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| Submission date |
Jul 18, 2023 |
| Last update date |
Sep 11, 2024 |
| Contact name |
Xin Sun |
| E-mail(s) |
sunxin@ifrec.osaka-u.ac.jp
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| Organization name |
IFReC, Osaka University
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| Street address |
3-1 Yamadaoka, Suita
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| City |
Osaka |
| ZIP/Postal code |
5650871 |
| Country |
Japan |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (12)
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| GSM7635036 |
WT_Sti, rep 1, ATACseq |
| GSM7635037 |
WT_Sti, rep 2, ATACseq |
| GSM7635038 |
WT_Sti, rep 3, ATACseq |
| GSM7635039 |
KO_Ctl, rep 1, ATACseq |
| GSM7635040 |
KO_Ctl, rep 2, ATACseq |
| GSM7635041 |
KO_Ctl, rep 3, ATACseq |
| GSM7635042 |
KO_Sti, rep 1, ATACseq |
| GSM7635043 |
KO_Sti, rep 2, ATACseq |
| GSM7635044 |
KO_Sti, rep 3, ATACseq |
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| This SubSeries is part of SuperSeries: |
| GSE237643 |
Deletion of the mRNA endonuclease Regnase-1 promotes NK cell anti-tumor activity via OCT2- dependent transcription of Ifng |
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| Relations |
| BioProject |
PRJNA996083 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE237637_RAW.tar |
1.7 Gb |
(http)(custom) |
TAR (of BW, NARROWPEAK) |
| GSE237637_count.rds.gz |
2.0 Mb |
(ftp)(http) |
RDS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
| Processed data provided as supplementary file |
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