Transcriptomics,Genomics

Dataset Information

149

RNA-seq of S2 cells after GFP (control), dKDM4A, or HP1a RNAi


ABSTRACT: Analysis of transcriptional changes from genes and repetitive elements after dKDM4A and HP1a RNAi of S2 cells Overall design: After 5 days of RNAi, total RNA was harvested using Trizol reagent from 5 x 106 S2 cells, and mRNA was purified using oligo-dT-conjugated magnetic beads. Library construction was conducted using TruSeq RNA sample preparation kits (Illumina). All sequencing data were obtained from the Vincent J. Coates Genomics Sequencing Laboratory at UC Berkeley.

REANALYSED by: GSE117217

INSTRUMENT(S): Illumina HiSeq 2000 (Drosophila melanogaster)

SUBMITTER: serafin colmenares  

PROVIDER: GSE99023 | GEO | 2018-02-15

REPOSITORIES: GEO

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Publications

Drosophila Histone Demethylase KDM4A Has Enzymatic and Non-enzymatic Roles in Controlling Heterochromatin Integrity.

Colmenares Serafin U SU   Swenson Joel M JM   Langley Sasha A SA   Kennedy Cameron C   Costes Sylvain V SV   Karpen Gary H GH  

Developmental cell 20170701 2


Eukaryotic genomes are broadly divided between gene-rich euchromatin and the highly repetitive heterochromatin domain, which is enriched for proteins critical for genome stability and transcriptional silencing. This study shows that Drosophila KDM4A (dKDM4A), previously characterized as a euchromatic histone H3 K36 demethylase and transcriptional regulator, predominantly localizes to heterochromatin and regulates heterochromatin position-effect variegation (PEV), organization of repetitive DNAs,  ...[more]

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