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Sample GSM1678784 Query DataSets for GSM1678784
Status Public on Sep 29, 2015
Title HEK293 nuclear RNA seq
Sample type SRA
Source name HEK293 nuclear RNA seq
Organism Homo sapiens
Characteristics cell line/type: HEK293 cells
subcellular fraction: nuclear
dicer knockdown: No
Treatment protocol Dicer depleted over 5 days when stated
Growth protocol 10% FCS in DMEM
Extracted molecule polyA RNA
Extraction protocol PolyA+ RNA and prepared with Ion Proton whole transcriptome v2 kit
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Ion Torrent Proton
Description 293_nucleus_RNAseq
Data processing Alignment with bowtie2
Selection for poly(A) supporting reads containing 2 or more non-genomically encoded A's
Conversion to bigwig file
Normalisation of bigwig files to reads per million
Genome_build: hg19
Supplementary_files_format_and_content: bigwig files containing the normalised (RPM) data
Submission date May 08, 2015
Last update date May 15, 2019
Contact name Jonathan Neve
Organization name Oxford University
Department Biochemistry
Lab Furger
Street address South Parks Road
City Oxford
ZIP/Postal code OX1 3QU
Country United Kingdom
Platform ID GPL17303
Series (1)
GSE68671 Differential regulation of alternatively polyadenylated isoforms
BioSample SAMN03646996
SRA SRX1021914

Supplementary file Size Download File type/resource
GSM1678784_293_nuc_+.bigwig 141.6 Mb (ftp)(http) BIGWIG
GSM1678784_293_nuc_-.bigwig 131.8 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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