 |
 |
GEO help: Mouse over screen elements for information. |
|
Status |
Public on Jan 20, 2017 |
Title |
hsHelaPacbioPost |
Sample type |
SRA |
|
|
Source name |
Hela
|
Organism |
Homo sapiens |
Characteristics |
tissue: Hela developmental stage: adult rna source: Gingeras lab, CSHL (ENCODE cell cultures)
|
Extracted molecule |
total RNA |
Extraction protocol |
See Samples – RNA source Ribo-depleted, oligodT-primed cDNA, barcoded, captured separately in human and mouse
|
|
|
Library strategy |
ncRNA-Seq |
Library source |
transcriptomic |
Library selection |
size fractionation |
Instrument model |
PacBio RS II |
|
|
Description |
“*Post*” and “*Pre*” contain post- and pre-capture data, respectively
|
Data processing |
Read mapping software: STAR v.2.4.0.1 Read merging: compmerge v.1.3 Genome_build: hg38, mm10 Supplementary_files_format_and_content: “Compmerge” BED files contain merged transcript models generated using compmerge on the BAM files produced by STAR, with PacBio reads as input. Four flavors are provided per sample: “*.all.bed”: all merged transcript models from confidently mapped reads, “*.cage+polyASupported.bed”: subset of “*all.bed” containing full-length (i.e., with CAGE support at their 5’ end and polyA support at their 3’ end) merged transcript models, “*.cageSupported.bed”: subset of “*all.bed” containing merged transcript models with 5’ end CAGE support, “*.polyASupported.bed”: subset of “*all.bed” containing merged transcript models with 3’ end polyA support
|
|
|
Submission date |
Jan 19, 2017 |
Last update date |
May 15, 2019 |
Contact name |
Julien Lagarde |
E-mail(s) |
julienlag@gmail.com
|
Organization name |
CRG
|
Department |
Bioinformatics and Genomics
|
Lab |
Computational Biology of RNA Processing
|
Street address |
Dr. Aiguader 88
|
City |
Barcelona |
ZIP/Postal code |
08003 |
Country |
Spain |
|
|
Platform ID |
GPL21311 |
Series (1) |
GSE93848 |
High-throughput manual-quality annotation of full-length long noncoding RNAs with Capture Long-Read Sequencing (CLS) |
|
Relations |
BioSample |
SAMN06242218 |
SRA |
SRX2505545 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
|
|
|
|
 |