|
| Status |
Public on Jul 26, 2012 |
| Title |
CSHL_RnaSeq_MCF-7_cytosol_shortTotal |
| Sample type |
SRA |
| |
|
| Source name |
MCF-7
|
| 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: 089C,090C,089C,090C
labexpid: LID46315,LID46315,LID46316,LID46316
labversion: iIDR
readtype: 1x101
readtype description: Single 101 nt reads
replicate: 3,4
localization: cytosol
localization description: The fluid between the cells outer membrane and the nucleus
protocol: None
protocol description: No special treatment or protocol applies
rnaextract: shortTotal
rnaextract description: Rna shorter than 200 nt that has not been seperated based on Poly Adenalyation
biorep: 089C,090C
labexpid: LID46315,LID46316
labversion: iIDR
readtype: 1x101
readtype description: Single 101 nt reads
|
| Biomaterial provider |
ATCC
|
| Extracted molecule |
cytoplasmic 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 |
SRX171081 |
| BioSample |
SAMN01095670 |
| Named Annotation |
GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolShorttotalMinusRep3.bigWig |
| Named Annotation |
GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolShorttotalMinusRep4.bigWig |
| Named Annotation |
GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolShorttotalPlusRep3.bigWig |
| Named Annotation |
GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolShorttotalPlusRep4.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolContigs.bedRnaElements.gz |
802.7 Kb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolExonsGencV10.gtf.gz |
2.3 Mb |
(ftp)(http) |
GTF |
| GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolProtocolRep3.pdf.gz |
419.3 Kb |
(ftp)(http) |
PDF |
| GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolProtocolRep4.pdf.gz |
410.5 Kb |
(ftp)(http) |
PDF |
| GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolShorttotalMinusRep3.bigWig |
5.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolShorttotalMinusRep4.bigWig |
7.6 Mb |
(ftp)(http) |
BIGWIG |
| GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolShorttotalPlusRep3.bigWig |
5.3 Mb |
(ftp)(http) |
BIGWIG |
| GSM973672_hg19_wgEncodeCshlShortRnaSeqMcf7CytosolShorttotalPlusRep4.bigWig |
7.6 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
