|
| Status |
Public on Jul 29, 2011 |
| Title |
CSHL_RnaSeq_BJ_cell_longNonPolyA (superseded by GSE90243) |
| Sample type |
SRA |
| |
|
| Source name |
BJ
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
cell description: skin fibroblast, "The line was established from skin taken from normal foreskin." - ATCC. (PMID: 9916803)
rnaextract: longNonPolyA
rnaextract description: Poly(A)- RNA longer than 200 nt
biorep: 037WC,038WC,037WC,038WC
labexpid: LID9007,LID9007,LID9008,LID9008
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
replicate: 1,2
spikeinpool: Nist14
rnaextract description: Poly(A)- RNA longer than 200 nt
biorep: 037WC
labexpid: LID9007
readtype: 2x76D
readtype description: Paired 76 n.t. directed reads
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
ATCC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Description |
****************************
GSM767855 record metadata submitted on Jul 27 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90243
****************************
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
| |
|
| Submission date |
Jul 27, 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 (2) |
| GSE26284 |
ENCODE Cold Spring Harbor Labs Long RNA-seq |
| GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
|
| Relations |
| Superseded by |
GSE90243 |
| SRA |
SRX085305 |
| BioSample |
SAMN00678398 |
| Named Annotation |
GSM767855_wgEncodeCshlLongRnaSeqBjCellLongnonpolyaMinusRawSigRep1.bigWig |
| Named Annotation |
GSM767855_wgEncodeCshlLongRnaSeqBjCellLongnonpolyaMinusRawSigRep2.bigWig |
| Named Annotation |
GSM767855_wgEncodeCshlLongRnaSeqBjCellLongnonpolyaPlusRawSigRep1.bigWig |
| Named Annotation |
GSM767855_wgEncodeCshlLongRnaSeqBjCellLongnonpolyaPlusRawSigRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM767855_hg19_wgEncodeCshlLongRnaSeqBjCellPamExonsDeNovo.gff.gz |
9.4 Mb |
(ftp)(http) |
GFF |
| GSM767855_hg19_wgEncodeCshlLongRnaSeqBjCellPamGeneDeNovoV2.gff.gz |
4.6 Mb |
(ftp)(http) |
GFF |
| GSM767855_hg19_wgEncodeCshlLongRnaSeqBjCellPamTranscriptDeNovoV2.gtf.gz |
5.0 Mb |
(ftp)(http) |
GTF |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellLongnonpolyaMinusRawSigRep1.bigWig |
134.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellLongnonpolyaMinusRawSigRep2.bigWig |
134.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellLongnonpolyaPlusRawSigRep1.bigWig |
140.1 Mb |
(ftp)(http) |
BIGWIG |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellLongnonpolyaPlusRawSigRep2.bigWig |
139.6 Mb |
(ftp)(http) |
BIGWIG |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamContigs.bedRnaElements.gz |
15.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamExonsGencV7.gtf.gz |
17.9 Mb |
(ftp)(http) |
GTF |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamGeneDeNovo.gtf.gz |
2.7 Mb |
(ftp)(http) |
GTF |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamGeneGencV7.gtf.gz |
2.0 Mb |
(ftp)(http) |
GTF |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamJunctions.bedRnaElements.gz |
4.3 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamSpikeinsRep1.spikeins.bam |
594.5 Mb |
(ftp)(http) |
BAM |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamSpikeinsRep2.spikeins.bam |
589.6 Mb |
(ftp)(http) |
BAM |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamTranscriptDeNovo.gtf.gz |
13.9 Mb |
(ftp)(http) |
GTF |
| GSM767855_wgEncodeCshlLongRnaSeqBjCellPamTranscriptGencV7.gtf.gz |
4.7 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
