Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

RNA-seq of PCGF5 knockout and PCGF3/5 double knockout mouse embryonics stem cells bearing doxycycline-inducible Xist transgene on chromosome 16


ABSTRACT: In vertebrates, the catalytic core of PRC1 comprises RING1A/B and one of six homologues of the Polycomb group RING finger (PCGF) protein. Unique characteristics of PCGF1-6 in turn define distinct subunit assemblies, broadly subdivided into canonical and non-canonical PRC1 complexes. This RNA-seq experiment aimed to test the hypothesis that Pcgf3/5 gene knockout abrogates Xist mediated gene repression. In this experiment, Pcgf3fl/flPcgf5-/- and Pcgf3-/-Pcgf5-/- mESCs bearing Xist transgene on chromosome 16 (clone C3F8) were cultured in differentiating conditions: plated on non-gelatinized TC dish in ES medium without LIF for 72 hours with (+dox) and without doxycycline. RNA was isolated from 4 biological replicates. In analysed cells chromosome 16 bears inducible Xist and the whole study investigates role of PCGF3 and PCGF5 in Xist-dependednt gene silencing, therefore both bam files containing alignments and counts per gene were uploaded to ArrayExpress only for chromosome 16. Genome-wide data can be provided upon request.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Mus musculus

SUBMITTER: Michal Gdula 

PROVIDER: E-MTAB-5642 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

Similar Datasets

2019-08-29 | PXD014287 | Pride
2016-02-09 | E-GEOD-67667 | biostudies-arrayexpress
2016-07-24 | E-GEOD-80510 | biostudies-arrayexpress
2021-03-08 | PXD023516 | Pride
2013-05-30 | E-GEOD-46918 | biostudies-arrayexpress
2013-11-04 | E-GEOD-48649 | biostudies-arrayexpress
2020-02-07 | PXD017348 | Pride
2011-11-17 | E-GEOD-33208 | biostudies-arrayexpress
2021-11-23 | E-MTAB-11183 | biostudies-arrayexpress
2021-09-10 | PXD024155 | Pride