|
Status |
Public on Jul 26, 2012 |
Title |
CSHL_RnaSeq_IMR90_nucleus_CIP-TAP_shortTotal |
Sample type |
SRA |
|
|
Source name |
IMR90
|
Organism |
Homo sapiens |
Characteristics |
datatype: RnaSeq datatype description: Sequencing analysis of RNA expression rnaextract: shortTotal rnaextract description: Rna shorter than 200 nt that has not been seperated based on Poly Adenalyation biorep: 045N,046N,045N,046N labexpid: LID45886,LID45887,LID45886,LID45887 labversion: iIDR readtype: 1x101 readtype description: Single 101 nt reads replicate: 1,2 localization: nucleus localization description: Large membrane bound part of cell containing chromosomes and the bulk of the cell's DNA protocol: CIP-TAP protocol description: This kind of library was made from RNA < 200 nucleotides that was pre-treated sequentially with Calf Intestinal Alkaline Phosphatase followed by Tobacco Acid Pyrophosphatase. Hence, it will be enriched for capped RNAs. rnaextract: shortTotal rnaextract description: Rna shorter than 200 nt that has not been seperated based on Poly Adenalyation biorep: 045N,046N labexpid: LID45886,LID45887 labversion: iIDR readtype: 1x101 readtype description: Single 101 nt reads
|
Biomaterial provider |
ATCC
|
Extracted molecule |
nuclear RNA |
Extraction protocol |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlShortRnaSeq
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlShortRnaSeq
|
|
|
Submission date |
Jul 25, 2012 |
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 |
GPL11154 |
Series (1) |
GSE24565 |
Small RNA-seq from ENCODE/Cold Spring Harbor Lab |
|
Relations |
SRA |
SRX171082 |
BioSample |
SAMN01095671 |
Named Annotation |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusShorttotalCiptapMinusRep1.bigWig |
Named Annotation |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusShorttotalCiptapMinusRep2.bigWig |
Named Annotation |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusShorttotalCiptapPlusRep1.bigWig |
Named Annotation |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusShorttotalCiptapPlusRep2.bigWig |
Supplementary file |
Size |
Download |
File type/resource |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusCiptapContigs.bedRnaElements.gz |
1.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusCiptapExonsGencV10.gtf.gz |
543.0 Kb |
(ftp)(http) |
GTF |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusCiptapProtocolRep1.pdf.gz |
463.5 Kb |
(ftp)(http) |
PDF |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusCiptapProtocolRep2.pdf.gz |
430.3 Kb |
(ftp)(http) |
PDF |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusShorttotalCiptapMinusRep1.bigWig |
15.8 Mb |
(ftp)(http) |
BIGWIG |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusShorttotalCiptapMinusRep2.bigWig |
14.0 Mb |
(ftp)(http) |
BIGWIG |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusShorttotalCiptapPlusRep1.bigWig |
15.8 Mb |
(ftp)(http) |
BIGWIG |
GSM973673_hg19_wgEncodeCshlShortRnaSeqImr90NucleusShorttotalCiptapPlusRep2.bigWig |
14.0 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |