|
| Status |
Public on Dec 16, 2011 |
| Title |
RIKEN_Cage_NHEK_nucleus_longPolyA |
| Sample type |
SRA |
| |
|
| Source name |
NHEK
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: Cage
datatype description: CAGE 5' RNA Tags
cell sex: F
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 028N,027N,028N,027N
labexpid: CTig10011,CTig10011,K09,K09
labversion: IDR
readtype: 1x36
readtype description: Single 36 nt reads
replicate: 3,4
localization description: Large membrane bound part of cell containing chromosomes and the bulk of the cell's DNA
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 027N
labexpid: K09
replicate: 3
replicate description: tier 3
|
| Biomaterial provider |
Lonza
|
| Growth protocol |
Keratinocyte_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 |
SRX111959 |
| BioSample |
SAMN00766271 |
| Named Annotation |
GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapMinusRawRep4.bigWig |
| Named Annotation |
GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapMinusSignalRep3.bigWig |
| Named Annotation |
GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapPlusRawRep4.bigWig |
| Named Annotation |
GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapPlusSignalRep3.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapClusters.bed.gz |
19.6 Mb |
(ftp)(http) |
BED |
| GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapMinusRawRep4.bigWig |
23.7 Mb |
(ftp)(http) |
BIGWIG |
| GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapMinusSignalRep3.bigWig |
11.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapPlusRawRep4.bigWig |
22.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapPlusSignalRep3.bigWig |
11.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapTssGencV7.gtf.gz |
2.7 Mb |
(ftp)(http) |
GTF |
| GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapTssHmmV2.bedRnaElements.gz |
5.8 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM849361_hg19_wgEncodeRikenCageNhekNucleusPapTssHmmV3.bedRnaElements.gz |
1.6 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
