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Items: 6

1.

Targeted RT-PCR assays spanning unannotated splice junctions sequenced by Roche 454.

(Submitter supplied) The ENCODE projects seeks to identify and characterize functional elements in the human genome. Throughout the scale-up phase of ENCODE, the transcriptome group has generate Long RNA-Seq, Small RNA-Seq, Cap-Analysis of Gene Expression (CAGE), and RNA-PET short read data on the Illumina platform for ~ 40 different human primary and transformed cell lines in replicate. From these data several high-resolution and discrete features/elements have been mined out (5’ caps, splice junctions, polyadenylation sites, small RNAs, etc…). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL9186
3 Samples
Download data:
GEO (PSL, TXT), SRA SRP013872
Series
Accession:
GSE38886
ID:
200038886
2.

RNA Subcellular CAGE Localization from ENCODE/RIKEN

(Submitter supplied) This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (Piero Carninci mailto:carninci@riken.jp). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:genome@soe.ucsc.edu). This track shows 5' cap analysis gene expression (CAGE) tags and clusters in RNA extracts (http://hgwdev.cse.ucsc.edu/cgi-bin/hgEncodeVocab?type=rnaExtract) from different sub-cellular localizations (http://hgwdev.cse.ucsc.edu/cgi-bin/hgEncodeVocab?type=localization) in multiple cell lines (http://hgwdev.cse.ucsc.edu/cgi-bin/hgEncodeVocab?type=cellType). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL9052 GPL10999 GPL11154
78 Samples
Download data:
GEO (BED, BEDRNAELEMENTS, BIGWIG, GTF, TXT), SRA SRP009862
Series
Accession:
GSE34448
ID:
200034448
3.

RNA Subcellular Localization by Paired End diTag Sequencing from ENCODE/GIS

(Submitter supplied) This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (Yijun Ruan mailto:ruanyj@gis.a-star.edu.sg). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:genome@soe.ucsc.edu). This track is produced as part of the ENCODE Transcriptome Project. It shows the starts and ends of full length mRNA transcripts determined by GIS paired-end ditag (PET) sequencing using RNA extracts (http://hgwdev.cse.ucsc.edu/cgi-bin/hgEncodeVocab?type=rnaExtract) from different sub-cellular localizations (http://hgwdev.cse.ucsc.edu/cgi-bin/hgEncodeVocab?type=localization) in different cell lines (http://hgwdev.cse.ucsc.edu/cgi-bin/hgEncodeVocab?type=cellType). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL11154 GPL9115 GPL10999
31 Samples
Download data:
GEO (BED, BIGWIG), SRA SRP009266
Series
Accession:
GSE33600
ID:
200033600
4.

RNA-seq from ENCODE/Caltech

(Submitter supplied) This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (mailto:georgi@caltech.edu for data coordination/informatics/experimental questions, mailto:diane@caltech.edu for informatics questions, mailto:bawilli_91125@yahoo.com for experimental questions). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:genome@soe.ucsc.edu). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL9052
24 Samples
Download data:
GEO (BAI, BAM, BIGBED, BIGWIG, GTF, TXT), SRA SRP014320
Series
Accession:
GSE33480
ID:
200033480
5.

ENCODE Cold Spring Harbor Labs Long RNA-seq

(Submitter supplied) For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
4 related Platforms
84 Samples
Download data:
GEO (BAM, BB, BEDRNAELEMENTS, BIGWIG, GFF, GTF, PDF), SRA SRP005098
Series
Accession:
GSE26284
ID:
200026284
6.

Small RNA-seq from ENCODE/Cold Spring Harbor Lab

(Submitter supplied) This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (Jonathan Preall jpreall@cshl.edu (Generation 0 Data from Hannon Lab), Carrie Davis davisc@cshl.edu (experimental), Alex Dobin dobin@cshl.edu (computational), Wei Lin wlin@cshl.edu (computational), Tom Gingeras gingeras@cshl.edu (primary investigator)). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:genome@soe.ucsc.edu). more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL10999 GPL11154 GPL9052
87 Samples
Download data:
GEO (BAM, BEDRNAELEMENTS, BIGWIG, GTF, PDF, TXT), SRA SRP003754
Series
Accession:
GSE24565
ID:
200024565
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