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Sample GSM1032813 Query DataSets for GSM1032813
Status Public on Nov 08, 2012
Title Dyak_WPP_RNAseq_3
Sample type SRA
Source name Whole animal white prepupa
Organism Drosophila yakuba
Characteristics developmental stage: white prepupa
Growth protocol The three sequenced inbred fly lines for the different Drosophila species are grown in room temperature on standard fly food. The white prepupa whole animals are collected within 15 min time interval.
Extracted molecule total RNA
Extraction protocol Total RNA samples are isolated using Trizol Chroloform, followed by QIAGEN column purification.
RNA seq libraries are prepared using standard Illumina single end RNA seq library protocol
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer
Description Sample 9
Data processing Sequencing data are mapped to the genome as well as the annotated exon-exon conjunctions using Bowtie, allowing 2 mismatches.
Only uniquely mapped reads were used to generate the read counts and RPKM values for each gene following the methods described in Mortazavi et al 2008 Nature Methods paper.
Genome_build: dm3, droSim1, droYak2
Supplementary_files_format_and_content: tab delimited file including read counts and RPKM values for each gene (abundance measurements)
Submission date Nov 07, 2012
Last update date May 15, 2019
Contact name Kevin P. White
Organization name University of Chicago
Department Institute for Genomics and Systems Biology
Street address 900 E. 57th STR. 10th FL.
City Chicago
State/province IL
ZIP/Postal code 60615
Country USA
Platform ID GPL11000
Series (1)
GSE24449 Genome-wide comparative ChIP-seq data of CTCF and RNA-seq data in Drosophila white prepupa on Illumina Genome Analyzer
SRA SRX203265
BioSample SAMN01803800

Supplementary file Size Download File type/resource
GSM1032813_dyak_s_5_WPP_RPKM_2.txt.gz 272.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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