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| Status |
Public on Aug 04, 2022 |
| Title |
Analysis of the genome-wide distribution of RNA Pol II in a neuroblastoma cell line under silencing of RNA helicases DDX5 and DDX17 |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
DEAD-box RNA helicases DDX5 and DDX17 regulate gene expression at different levels such as transcription and splicing, but the underlying mechanisms are not fully understood. A calibrated ChIP-seq analysis of total RNA Polymerase II was carried out in DDX5/DDX17-depleted SH-SY5Y cells to analyse the contribution of DDX5/DDX17 to RNAPII distribution.
Univ Lyon, ENS de Lyon, CNRS UMR 5239, INSERM U1293, Laboratory of Biology and Modelling of the Cell, 46 Allée d'Italie, F-69007, Lyon, France.
Corresponding author: cyril.bourgeois@inserm.fr
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| Overall design |
For each of the 3 replicates of calibrated RNAPII ChIP-seq, we pooled 4 independent IP, each of them performed on 40 µg of chromatin supplemented with 32 ng of Drosophila spike-in chromatin (Active Motif #53083), with 4 µg of mouse anti-Pol II F-12 antibody (F-12, sc55492, Santa Cruz) and 2 µg of spike-in antibody (Active Motif #61686).
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| Contributor(s) |
VALAT J, POLVECHE H, BOURGEOIS CF |
| Citation(s) |
36039747 |
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| Submission date |
Sep 06, 2021 |
| Last update date |
Sep 23, 2022 |
| Contact name |
Hélène Polvèche |
| E-mail(s) |
hpolveche@istem.fr
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| Organization name |
I-Stem
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| Street address |
28, Rue Henri Desbruères
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| City |
Corbeil-Essonnes |
| ZIP/Postal code |
91100 |
| Country |
France |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA761111 |
| SRA |
SRP335875 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE183517_RAW.tar |
77.4 Mb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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