|
| Status |
Public on Dec 02, 2019 |
| Title |
Drosophila Melanogaster_zt3_25C_2 |
| Sample type |
SRA |
| |
|
| Source name |
D. Melanogaster_zt3_25C_fly heads
|
| Organism |
Drosophila melanogaster |
| Characteristics |
strain: Canton-S
circadian timepoint: zt3
temperature: 25C
tissue: fly heads
replicate: 2
|
| Treatment protocol |
RNA extraction was done using TRI Reagent [SIGMA] following manufacturer´s protocol.
|
| Growth protocol |
Flies were grown at different temperatures
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
The precipitated RNAwas taken for library preparation.
3’-seq libraries were prepared as previously described (Shishki et al., Afik et al., 2017)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
25_AACGGTGT
|
| Data processing |
Read 1 was not used. Read 2 for each sample was processed as described (see bellow)
Ribosomal RNA was taken out using Bowtie2 aligner against the ribosomal RNA
Reads were aligned to dm3 genome using TopHat
The aligned reads were analyzed with cufflinks
Genome_build: dm3
Supplementary_files_format_and_content: table of reads; txt file with isoforms quantification
|
| |
|
| Submission date |
Dec 20, 2018 |
| Last update date |
Dec 02, 2019 |
| Contact name |
Sebastian Kadener |
| E-mail(s) |
[email protected]
|
| Organization name |
Brandeis University
|
| Street address |
415 South Street
|
| City |
Waltham |
| State/province |
MA |
| ZIP/Postal code |
9190401 |
| Country |
USA |
| |
|
| Platform ID |
GPL19132 |
| Series (2) |
| GSE124136 |
Differences in circadian rhythms in fly at different temperatures |
| GSE124200 |
RNA seq from fly heads at different temperatures and circadian timepoints [independent replicate 3] |
|
| Relations |
| BioSample |
SAMN10620813 |
| SRA |
SRX5170863 |
