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Sample GSM5088661 Query DataSets for GSM5088661
Status Public on Aug 10, 2021
Title Ash1NSD round1 sample1
Sample type SRA
 
Source name Male 3rd Instar larvae brain
Organism Drosophila melanogaster
Characteristics developmental stage: 3rd instar larvae
tissue: brain
Sex: male
genotype: ash122 NSDds46/ash19011 NSD ds46
Extracted molecule total RNA
Extraction protocol For each sample, five male third instar larvae brains were homogenized and RNA was purified using the Directzol microprep kit (Zymo research) and the standard protocol with on column DNase treatment was used.
Total-RNA libraries were synthesised using the Ovation RNA-Seq system for Drosophila (NuGEN). Standard protocol procedure with integrated DNase treatment was used to make the sequencing libraries. Fragmentation was performed using a Covaris E220 Focused-ultrasonicator with the recommended settings for 200 base pair target length.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing Adaptor sequence was trimmed from the sequenced reads, and masked for low-complexity or low-quality sequence, then mapped to BDGP6 whole genome using Star v2.5.3 (DOBIN et al. 2013) with default settings.
Read counts were obtained with featureCounts v1.5.1 with default settings
Genome_build: BDGP6
Supplementary_files_format_and_content: Raw count table in tab delimited .txt format
 
Submission date Feb 17, 2021
Last update date Aug 10, 2021
Contact name Henrik Lindehell
Organization name Umeå University
Department Department of Molecular Biology
Lab Jan Larsson
Street address Umeå universitet
City Umeå
ZIP/Postal code 90187
Country Sweden
 
Platform ID GPL17275
Series (1)
GSE166934 The role of H3K36 methylation and associated methyl transferases in chromosome-specific gene regulation
Relations
BioSample SAMN17948095
SRA SRX10118263

Supplementary file Size Download File type/resource
GSM5088661_P9009_1036_S70_L007_R1_001Aligned.sortedByCoord.out_gene.featureCounts.txt.gz 814.1 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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