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| Status |
Public on Apr 26, 2021 |
| Title |
DNA G-quadruplexes modulate highly transcribed genes in human chromatin [RNA-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
G4s are nucleic acids secondary structures that form in the presence of four or more runs of gunanine. In vitro results suggested that G4s are involved in the regulation of both transcription and replication processes. In vitro results suggested that G4s are involved in the regulation of both transcription 6–10 and replication 11–13 processes allowed to demonstrate the actual folding of G4s in live cells, but also inserted them in a more biologically relevant context. . In the present work we mapped G4s in the chromatin of a WD-LPS cell line (93T449), we integrated the information of G4 folding with their chromatin context, the transcriptional level of the associated genes and compared the results with data obtained in a cell line of different origin (HaCaT).
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| Overall design |
Transcriptional analysis in untreated and c-exNDI treated 93T449 cells.
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| Contributor(s) |
Lago S, Schotta G, Cernilogar FM, Richter SN |
| Citation(s) |
34162892 |
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Sara Lago, Filippo M. Cernilogar, Maryam Kazerani, Helena Domíniguez Moreno, Matteo Nadai, Gunnar Schotta, and Sara N. Richter. Promoter G-quadruplexes and transcription factors cooperate to shape the cell type-specific transcriptome. bioRxiv 2020.08.27.236778; doi:10.1101/2020.08.27.236778
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| Submission date |
Feb 19, 2020 |
| Last update date |
Jul 14, 2021 |
| Contact name |
Filippo M. Cernilogar |
| E-mail(s) |
filippo.cernilogar@med.uni-muenchen.de
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| Organization name |
LMU Munich
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| Department |
Biomedical Center
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| Street address |
Grosshaderner Strasse 9
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| City |
Planegg-Martinsried |
| ZIP/Postal code |
82152 |
| Country |
Germany |
| |
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| Platforms (1) |
| GPL18460 |
Illumina HiSeq 1500 (Homo sapiens) |
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| Samples (6)
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| GSM4320558 |
RNAseq of 93T449 liposarcoma cell line rep1 |
| GSM4320559 |
RNAseq of 93T449 liposarcoma cell line rep2 |
| GSM4320560 |
RNAseq of 93T449 liposarcoma cell line rep3 |
| GSM4320561 |
RNAseq of c-exNDI treated 93T449 liposarcoma cell line rep1 |
| GSM4320562 |
RNAseq of c-exNDI treated 93T449 liposarcoma cell line rep2 |
| GSM4320563 |
RNAseq of c-exNDI treated 93T449 liposarcoma cell line rep3 |
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| This SubSeries is part of SuperSeries: |
| GSE145543 |
DNA G-quadruplexes modulate highly transcribed genes in human chromatin |
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| Relations |
| BioProject |
PRJNA607526 |
| SRA |
SRP250011 |
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