|
| Status |
Public on Aug 14, 2012 |
| Title |
CSHL_RnaSeq_Monocytes-CD14+_cell_longPolyA (superseded by GSE90272) |
| Sample type |
SRA |
| |
|
| Source name |
Monocytes-CD14+
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 039WC,040WC,040WC,039WC,039WC,040WC
labexpid: LID44497,LID44594,LID44594,LID44594,LID44497,LID44497
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
replicate: 1,2
spikeinpool: Nist14
localization description: Whole cell
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 039WC,040WC
labexpid: LID44594,LID44497
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
spikeinpool: Nist14
|
| Biomaterial provider |
S. Heimfeld Laboratory, FHCRC
|
| Extracted molecule |
polyA 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 |
****************************
GSM984609 record metadata submitted on Aug 13 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90272
****************************
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
| |
|
| Submission date |
Aug 13, 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 |
GPL10999 |
| Series (2) |
| GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
| GSE49417 |
The conserved organization of the human and mouse transcriptomes |
|
| Relations |
| Superseded by |
GSE90272 |
| SRA |
SRX179434 |
| BioSample |
SAMN01121028 |
| Named Annotation |
GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapMinusRep1.bigWig |
| Named Annotation |
GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapMinusRep2.bigWig |
| Named Annotation |
GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapPlusRep1.bigWig |
| Named Annotation |
GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapPlusRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapContigs.bedRnaElements.gz |
10.4 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapExonsDeNovo.gff.gz |
12.4 Mb |
(ftp)(http) |
GFF |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapExonsGencV10.gtf.gz |
19.4 Mb |
(ftp)(http) |
GTF |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapGeneDeNovo.gff.gz |
1.5 Mb |
(ftp)(http) |
GFF |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapGeneGencV10.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapJunctions.bedRnaElements.gz |
9.5 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapMinusRep1.bigWig |
186.1 Mb |
(ftp)(http) |
BIGWIG |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapMinusRep2.bigWig |
105.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapPlusRep1.bigWig |
192.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapPlusRep2.bigWig |
108.8 Mb |
(ftp)(http) |
BIGWIG |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapProtocolRep1V2.pdf.gz |
362.7 Kb |
(ftp)(http) |
PDF |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapProtocolRep2V2.pdf.gz |
367.5 Kb |
(ftp)(http) |
PDF |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapSpikeinsRep1.spikeins.bam |
982.6 Mb |
(ftp)(http) |
BAM |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapSpikeinsRep2.spikeins.bam |
524.9 Mb |
(ftp)(http) |
BAM |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapTranscriptDeNovo.gtf.gz |
2.0 Mb |
(ftp)(http) |
GTF |
| GSM984609_hg19_wgEncodeCshlLongRnaSeqMonocd14CellPapTranscriptGencV10.gtf.gz |
4.9 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
