|
| Status |
Public on Jan 29, 2020 |
| Title |
Ctrl_1 |
| Sample type |
SRA |
| |
|
| Source name |
3rd instar larvae
|
| Organism |
Drosophila melanogaster |
| Characteristics |
strain: CantonS
tissue: Whole body
age: 3rd instar larvae
genotype: Control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Third instar larvae were collected, flash frozen in liquid Nitrogen, and RNA was harvested using Trizol reagent. QuantiTect Reverse Transcription Kit (Cat#205311) 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 NovaSeq 6000 |
| |
|
| Description |
w1118_1
|
| Data processing |
Illumina NovaSeq 6000 used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to BDGP6 whole genome using bowtie v2.3.4.1 with default parameters and TopHat v2.3.4.1 with default parameters
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using caffdiff software.
Genome_build: DGRP6
Supplementary_files_format_and_content: gene feature format files include FPKM values for each Sample
|
| |
|
| Submission date |
Jan 28, 2020 |
| Last update date |
Feb 01, 2020 |
| Contact name |
Toshiro Aigaki |
| E-mail(s) |
aigaki-toshiro@tmu.ac.jp
|
| Organization name |
Tokyo Metropolitan University
|
| Department |
Biological Sciences
|
| Lab |
Cellular Genetics Laboratory
|
| Street address |
1-1, Minami-oosawa, Hachioji-shi
|
| City |
Tokyo |
| ZIP/Postal code |
1920397 |
| Country |
Japan |
| |
|
| Platform ID |
GPL25244 |
| Series (1) |
| GSE144343 |
Gene expression analysis of third instar larvae ski3 mutants |
|
| Relations |
| BioSample |
SAMN13932438 |
| SRA |
SRX7639274 |
