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| Status |
Public on Aug 23, 2024 |
| Title |
ZNF143 is a transcriptional regulator of nuclear-encoded mitochondrial genes that acts independently of looping and CTCF |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Gene expression is orchestrated by transcription factors, which function within the context of a three-dimensional genome. Zinc finger protein 143 (ZNF143/ZFP143) is a transcription factor that has been implicated in both gene activation and chromatin looping. To study the direct consequences of ZNF143/ZFP143 loss, we generated a ZNF143/ZFP143 degron line. Our results show that ZNF143/ZFP143 depletion has no effect on chromatin looping. Systematic analysis of ZNF143/ZFP143 occupancy data revealed that a commonly used antibody cross-reacts with CTCF, leading to its incorrect association with chromatin loops. Nevertheless, ZNF143/ZFP143 specifically activates nuclear-encoded mitochondrial genes and its loss leads to severe mitochondrial dysfunction. Using an in vitro embryo model, we find that ZNF143/ZFP143 is an essential regulator of organismal development. Our results establish ZNF143/ZFP143 as a conserved transcriptional regulator of cell proliferation and differentiation by safeguarding mitochondrial activity.
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| Overall design |
Analysis of ZNF143 and CTCF chromatin occupancy with and without depletion of the ZNF143 transcription factor using the dTAG depletion system in HEK293T cells.
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| Contributor(s) |
Magnitov MD, Dong J, Sathyan KM, Guertin MJ, de Wit E |
| Citation(s) |
39708805 |
| |
| Submission date |
Jul 09, 2024 |
| Last update date |
Dec 29, 2024 |
| Contact name |
Mikhail Magnitov |
| Organization name |
The Netherlands Cancer Institute
|
| Street address |
Plesmanlaan 121
|
| City |
Amsterdam |
| ZIP/Postal code |
1066CX |
| Country |
Netherlands |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (14)
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| GSM8386424 |
HEK293T_ChIPseq_ZNF143_Proteintech_Untreated_rep1 |
| GSM8386425 |
HEK293T_ChIPseq_ZNF143_Proteintech_Untreated_rep2 |
| GSM8386426 |
HEK293T_ChIPseq_ZNF143_Proteintech_Untreated_rep3 |
| GSM8386427 |
HEK293T_ChIPseq_ZNF143_Proteintech_Untreated_rep4 |
| GSM8386428 |
HEK293T_ChIPseq_ZNF143_Proteintech_dTAG_rep1 |
| GSM8386429 |
HEK293T_ChIPseq_ZNF143_Proteintech_dTAG_rep2 |
| GSM8386430 |
HEK293T_ChIPseq_ZNF143_Proteintech_dTAG_rep3 |
| GSM8386431 |
HEK293T_ChIPseq_ZNF143_Proteintech_dTAG_rep4 |
| GSM8386432 |
HEK293T_ChIPseq_CTCF_Untreated_rep1 |
| GSM8386433 |
HEK293T_ChIPseq_CTCF_Untreated_rep2 |
| GSM8386434 |
HEK293T_ChIPseq_CTCF_Untreated_rep3 |
| GSM8386435 |
HEK293T_ChIPseq_CTCF_dTAG_rep1 |
| GSM8386436 |
HEK293T_ChIPseq_CTCF_dTAG_rep2 |
| GSM8386437 |
HEK293T_ChIPseq_CTCF_dTAG_rep3 |
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| Relations |
| BioProject |
PRJNA1133721 |
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