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Sample GSM2787238 Query DataSets for GSM2787238
Status Public on May 29, 2018
Title Scyliorhinus_2_RNASeq
Sample type SRA
 
Source name Brain
Organism Scyliorhinus retifer
Characteristics developmental stage: Adult
tissue/cell type: Brain
Extracted molecule polyA RNA
Extraction protocol Tissues were removed, preserved in RNAlater solution at -20C, and RNA was harvested using Trizol reagent. Illumina TruSeq Stranded mRNA Library Sample Prep Kit (Cat#RS-122-2101) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
 
Description forebrain sample
Data processing All reads were trimmer for low complexity or low quality ends (Sickle version 1.3).
Forward and reverse reads were pooled. A transcriptome was assembled using Trinity (version 2.1.0)
Estimates of relative abundance for differential expression were performed using RSEM (version 1.1.17)
Genome_build: de novo assembled transcriptome Scyliorhinus_assembly.txt
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each
 
Submission date Sep 18, 2017
Last update date May 15, 2019
Contact name Duncan Leitch
Organization name University of California - San Francisco
Department Physiology
Street address 600 16th St.
City San Francisco
State/province California
ZIP/Postal code 94158
Country USA
 
Platform ID GPL24026
Series (1)
GSE103977 RNA-seq of Scyliorhinus retifer electroreceptors
Relations
BioSample SAMN07664801
SRA SRX3196415

Supplementary file Size Download File type/resource
GSM2787238_Scyliorhinus_2_RSEM.genes.results.txt.gz 1.8 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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