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Sample GSM2463807 Query DataSets for GSM2463807
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.
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
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)
BioSample SAMN06242218
SRA SRX2505545

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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