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Sample GSM1557915 Query DataSets for GSM1557915
Status Public on Feb 03, 2015
Title B6-2
Sample type SRA
Source name Eye
Organism Mus musculus
Characteristics tissue: eye
strain: C57BL/6
genotype: Wild Type
age: Post natal day 21
Extracted molecule total RNA
Extraction protocol Eyes were removed and fixed in RNALater solution and RNA was isolated using the Qiagen Rneasy Kit
RNA libraries were prepared for sequencing using standard Illumina protocols
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Data processing Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm9 whole genome using Tophat (v2.0.12)
Transcripts were assembled and analyzed sequentially by Cufflinks (v2.2.1), Cuffdiff (v2.2.1) and CummeRbund (v2.6.1)
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009.
Genome_build: n/a
Supplementary_files_format_and_content: RPKM
Submission date Dec 03, 2014
Last update date May 15, 2019
Contact name Brian Michael Kevany
Phone 2163683063
Organization name Case Western Reserve University
Department Pharmacology
Lab W317
Street address 10900 Euclid Ave.
City Cleveland
State/province OH
ZIP/Postal code 44106
Country USA
Platform ID GPL17021
Series (1)
GSE63810 Next Generation Sequencing Comparison of C57BL/6J and BC027072 -/- Eye Transcriptomes
BioSample SAMN03251866
SRA SRX794141

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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