|
| Status |
Public on Dec 16, 2011 |
| Title |
RIKEN_Cage_HepG2_cytosol_longPolyA |
| Sample type |
SRA |
| |
|
| Source name |
HepG2
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: Cage
datatype description: CAGE 5' RNA Tags
cell description: hepatocellular carcinoma
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 014C,013C,014C,013C
labexpid: J89,J89,J90,J90
labversion: IDR
replicate: 1,2
cell sex: M
localization: cytosol
localization description: The fluid between the cells outer membrane and the nucleus
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 013C
labexpid: J89
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
ATCC
|
| Growth protocol |
HepG2_protocol.pdf
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeRikenCage
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
CAGE |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeRikenCage
|
| |
|
| Submission date |
Dec 14, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
encode-help@lists.stanford.edu
|
| Organization name |
ENCODE DCC
|
| Street address |
300 Pasteur Dr
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
| |
|
| Platform ID |
GPL10999 |
| Series (1) |
| GSE34448 |
RNA Subcellular CAGE Localization from ENCODE/RIKEN |
|
| Relations |
| SRA |
SRX111941 |
| BioSample |
SAMN00766253 |
| Named Annotation |
GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapMinusSignalRep1.bigWig |
| Named Annotation |
GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapMinusSignalRep2.bigWig |
| Named Annotation |
GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapPlusSignalRep1.bigWig |
| Named Annotation |
GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapPlusSignalRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapClusters.bed.gz |
11.3 Mb |
(ftp)(http) |
BED |
| GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapMinusSignalRep1.bigWig |
4.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapMinusSignalRep2.bigWig |
4.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapPlusSignalRep1.bigWig |
4.2 Mb |
(ftp)(http) |
BIGWIG |
| GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapPlusSignalRep2.bigWig |
4.7 Mb |
(ftp)(http) |
BIGWIG |
| GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapTssGencV7.gtf.gz |
3.0 Mb |
(ftp)(http) |
GTF |
| GSM849343_hg19_wgEncodeRikenCageHepg2CytosolPapTssHmm.bedRnaElements.gz |
4.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
