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Sample GSM831503 Query DataSets for GSM831503
Status Public on Nov 17, 2011
Title 2-4cell-1
Sample type SRA
 
Source name 2-4cell RNA-Seq
Organism Danio rerio
Characteristics tissue: embryo
developmental stage: embryogenesis: 2-4 cell stage
average insert size (fragment length): 710.502832
stdev for insert size: 1336.039246
Growth protocol Zebrafish embryos were dechorionated at the 1-cell stage, followed by incubation at 28C.
Extracted molecule polyA RNA
Extraction protocol Total RNA was isolated using the standard Trizol (Invitrogen) protocol. Two rounds of PolyA+-RNA purification were performed for each sample, using the PolyA(Purist)TM-MAG kit (Ambion). The quality of the RNA and lack of contaminating ribosomal RNA were confirmed using the Agilent 2100 Bioanalyzer. Strand-specific libraries for 76 bp paired-end sequencing were prepared according to a modified UTP-method (Parkhomchuk et al. 2009), as detailed in (Levin et al. 2010).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description RNA-Seq
Data processing Th summary result files of he developmental transcriptome of all samples are available as supplementary information with the paper.
 
Submission date Nov 11, 2011
Last update date May 15, 2019
Contact name Eivind Valen
E-mail(s) eivind.valen@gmail.com
Organization name University of Copenhagen
Department Dep. of Biology
Lab Sandelin
Street address Ole Maaloes Vej 4
City Copenhagen E
State/province Select
ZIP/Postal code 2100
Country Denmark
 
Platform ID GPL14875
Series (2)
GSE32898 Comprehensive identification of long non-coding RNAs expressed during zebrafish embryogenesis [RNA_seq]
GSE32900 Comprehensive identification of long non-coding RNAs expressed during zebrafish embryogenesis
Relations
SRA SRX107383
BioSample SAMN00760472

Supplementary data files not provided
SRA Run SelectorHelp
Processed data not provided for this record
Raw data are available in SRA

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