|
| Status |
Public on Jul 02, 2021 |
| Title |
Seven days old, white-eyed social isolation - replicate 3 |
| Sample type |
SRA |
| |
|
| Source name |
Seven days old, white-eyed social isolation
|
| Organism |
Drosophila melanogaster |
| Characteristics |
replicate: 3
age: 7 days
Sex: male
housing: isolated
genotype: wt
tissue: antennae
|
| Treatment protocol |
For single housing (SH) condition, 80-100 hour-old pupae were separated by sex and males were placed into individual vials, allowed to eclose alone, and aged to 7 days to deprive flies of pheromone interaction on ORNs. For group housing (GH) condition, 25-30 newly eclosed males were collected and placed into food vials. These were aged to 7 days and 180 antennae were dissected per sample.
|
| Growth protocol |
Flies were raised on standard fly food (containing yeast, cornmeal, agar, and molasses) at 25°C in a 12-hour light/12-hour dark cycle in cylindrical plastic vials (diameter, 24 mm and height, 94 mm).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
KAPA HYPER mRNA , NON stranded.
Illumina NovaSeq 6000.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
7D_ISOLATED_3
|
| Data processing |
Sequenced reads were filtered/trimmed with FASTP.
Filtered reads were aligned to the dm6 reference genome (consolidated chromosomes only) using Mapsplice2 with default parameters.
Samtools was used to filter alignments for read duplication ( rmdup -rS) and quality ( view -bh -q 20 -F 0x0200 -F 0x04 -f 0x0002 ).
Mapped reads were counted against the reference gene annotation using featureCounts ( -J —verbose -M -p -B -C ).
Genome_build: dm6
Supplementary_files_format_and_content: new_sequence.vs_dm6main.dm6_genes.mapspliceMulti.MpBC.counts.txt: Matrix table with raw gene counts for every gene and every sample.
|
| |
|
| Submission date |
Jun 30, 2021 |
| Last update date |
Jul 02, 2021 |
| Contact name |
Corbin Jones |
| E-mail(s) |
cdjones@email.unc.edu
|
| Organization name |
UNC-CH
|
| Department |
Biology
|
| Street address |
250 Bell Tower Dr
|
| City |
Chapel Hil |
| State/province |
NC |
| ZIP/Postal code |
27514 |
| Country |
USA |
| |
|
| Platform ID |
GPL25244 |
| Series (1) |
| GSE179213 |
Changes in splicing and neuromodulatory gene expression programs in sensory neurons with pheromone signaling and social experience |
|
| Relations |
| BioSample |
SAMN19971756 |
| SRA |
SRX11317313 |
