|
| Status |
Public on Jun 10, 2016 |
| Title |
SiR-sdi-EA1 |
| Sample type |
SRA |
| |
|
| Source name |
eye-antennal imaginal disc
|
| Organism |
Drosophila melanogaster |
| Characteristics |
developmental time point: third instar wandering larvae
strain: Hand dissection
genotype: UAS-scrib-RNAi, UAS-Ras[v12]/+; hh-Gal4, UAS-GFP/ UAS-kay-TRiP[HMS00254]-RNAi
|
| Treatment protocol |
Wandering third instar larvae were collected and eye-antennal, leg, and wing imaginal discs were isolated by dissection for each genotype on the day indicated. Dissection tools and surfaces were prepared with RNA-Zap(Sigma). Discs were dissected from 35-50 larvae and transferred into RNAse-free 1xPBS on ice. In each genotype replicate 1 and replicate 2 represent independent dissections.
|
| Growth protocol |
All flies were raised at 25˚C on standards fly food
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using RNAeasy mini spin kit (Qiagen).
Quality control, library preparation and sequencing were performed by VIB Nucleomics Core Facility (Leuven, BE)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
day7 & 8
SiR-sdi-EA1_S5
|
| Data processing |
cleaning (fastq-mcf)
mapping to D. melanogaster genome r_5.45 using TopHat2 (default parameters)
quantification of gene expression measures with HT-Seq count (option -str=no) using D. melanogaster gene annotation release 5.45 from FlyBase
Genome_build: Drosophila melanogaster dm3
|
| |
|
| Submission date |
May 10, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Delphine Potier |
| E-mail(s) |
potier@ciml.univ-mrs.fr
|
| Organization name |
CIML
|
| Street address |
163 avenue de luminy
|
| City |
Marseille |
| ZIP/Postal code |
13009 |
| Country |
France |
| |
|
| Platform ID |
GPL19132 |
| Series (2) |
| GSE71354 |
An ectopic network of transcription factors regulated by Hippo signaling drives growth and invasion of a malignant tumor model |
| GSE81272 |
An ectopic network of transcription factors regulated by Hippo signaling drives growth and invasion of a malignant tumor model [larval imaginal discs (eye, wing and leg)] |
|
| Relations |
| Reanalyzed by |
GSM3281151 |
| BioSample |
SAMN04967247 |
| SRA |
SRX1753845 |
