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Series GSE133273 Query DataSets for GSE133273
Status Public on Jun 28, 2019
Title Effects of transcription on genome - nuclear lamina interactions: RNA-seq data
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary In mammalian nuclei, transcriptionally active genomic regions tend to localize to the interior of the nucleus while inactive regions are often located at at the nuclear lamina. In this study we activated specific genes in lamina-associated domains by TALE-VP64 or CRISPRa-mediated activation. We also reduced transcription of individual genes by knockout of promoter/enhancer regions, or by insertion of a transcription termination sequence. In each case we generated genome-wide DamID maps to determine changes in nuclear lamina interactions, and in selected cases we also generated Repli-seq maps and/or RNAseq data.
Overall design Transcription of individual genes was manipulated in human RPE-1 cells by CRISPRa. Changes in gene expression were assayed by RNA-seq.
Contributor(s) Brueckner L, van Steensel B
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Submission date Jun 25, 2019
Last update date Jun 30, 2019
Contact name Bas van Steensel
Phone + 31 20 512 2040
Fax +31 20 669 1383
Organization name Netherlands Cancer Institute
Department division of Molecular Biology
Lab van Steensel group
Street address Plesmanlaan 121
City Amsterdam
ZIP/Postal code 1066 CX
Country Netherlands
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (20)
GSM3904601 RNA-seq, RPE, CRISPRa, ctrl, rep1 [4861_1_CM1502_CGATGTA]
GSM3904602 RNA-seq, RPE, CRISPRa, ctrl, rep2 [4862_1_CM1502_ATCACGA]
GSM3904603 RNA-seq, RPE, CRISPRa, ABCB1, rep1 [4861_9_plb186_ATGTCAG]
This SubSeries is part of SuperSeries:
GSE133275 Effects of transcription on genome - nuclear lamina interactions
BioProject PRJNA551545
SRA SRP212318

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Supplementary file Size Download File type/resource
GSE133273_RNAseq_CRISPRa_RPE_readcounts_BvS190614.txt.gz 1.6 Mb (ftp)(http) TXT
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