|
Status |
Public on Aug 10, 2021 |
Title |
NSD round1 sample2 |
Sample type |
SRA |
|
|
Source name |
Male 3rd Instar larvae brain
|
Organism |
Drosophila melanogaster |
Characteristics |
developmental stage: 3rd instar larvae tissue: brain Sex: male genotype: NSDds46
|
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.
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|
|
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
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|
|
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 |
SAMN17948109 |
SRA |
SRX10118254 |