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Sample GSM925762 Query DataSets for GSM925762
Status Public on Dec 11, 2012
Title LFB_scramble_hiseq_repA
Sample type SRA
Source name LFB_scramble_hiseq_repA
Organism Homo sapiens
Characteristics tissue: lung fibroblasts
transfection: Scramble siRNA
Extracted molecule total RNA
Extraction protocol Total RNA from human cell lines or human fat was extracted with Trizol (Invitrogen) and purified via the RNeasy mini kit (Qiagen) according to the manufacturers’ instructions. RNA quality was assessed using an Aglient Bioanalyzer. RNA-Seq libraries were prepared with the TruSeq mRNA-Seq kit (v1) according to manufacturer's instructions. Sequenced insert length for all libraries was approximately 180bp with a standard deviation of 50bp.
TruSeq RNA-Seq kit v1
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Data processing All reads aligned with TopHat version 1.4.0 using the following options: "-a 5" against hg19 and annotated UCSC coding transcripts.
Aligments were processed with Cuffdiff version 2.0.0 using default options.
Genome_build: hg19
Supplementary_files_format_and_content: Cuffdiff expression tracking
Submission date May 02, 2012
Last update date May 15, 2019
Contact name Cole Trapnell
Organization name Harvard University
Department Stem Cell and Regenerative Biology
Lab John Rinn
Street address 7 Divinity Ave
City Cambridge
State/province MA
ZIP/Postal code 02138
Country USA
Platform ID GPL11154
Series (2)
GSE37703 Differential analysis of HOXA1 in adult cells at isoform resolution by RNA-Seq [Illumina]
GSE37704 Differential analysis of gene regulation at transcript resolution by RNA-Seq
SRA SRX145662
BioSample SAMN00990704

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

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