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Sample GSM3904613 Query DataSets for GSM3904613
Status Public on Jun 28, 2019
Title RNA-seq, RPE, CRISPRa, PCNX2, rep1 [4861_7_plb181_AGTCAAC]
Sample type SRA
Source name RNA-seq_RPE_CRISPRa_PCNX2
Organism Homo sapiens
Characteristics cell line: RPE-1
genotype/variation: stably expressing SunTag-CRISPRa
transfected protein: PCNX2
Treatment protocol sgRNAs were cloned into Lentiguide-Puro vector (Addgene #52963) using restriction enzyme BsmBI, and Lentivirus was prepared. RPE-1 cells stably expressing SunTag-CRISPRa were infected with LentiGuide virus and selected with 10 µg/µl Puromycin for one week to obtain stable polyclonal cell pools.
Growth protocol Cells were cultured according to 4DNucleome SOP,
Extracted molecule polyA RNA
Extraction protocol total RNA was extracted using TRIsure and selected for polyadenylated fraction
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Description 4861_7_plb181_AGTCAAC_S1
Data processing Reads were aligned to hg19 using TopHat version 2.1, with Ensembl genome build 75.
Genome_build: GRCh37.75
Submission date Jun 25, 2019
Last update date Jun 28, 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
Platform ID GPL16791
Series (2)
GSE133273 Effects of transcription on genome - nuclear lamina interactions: RNA-seq data
GSE133275 Effects of transcription on genome - nuclear lamina interactions
BioSample SAMN12136040
SRA SRX6366114

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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