|
| Status |
Public on Oct 11, 2018 |
| Title |
0h_ctrl_rep1 [RNA-Seq] |
| Sample type |
SRA |
| |
|
| Source name |
Undamaged Wing Disc
|
| Organism |
Drosophila melanogaster |
| Characteristics |
developmental stage: Third instar larvae
tissue: wing disc
|
| Growth protocol |
Flies were grown on standard media
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
We used 40 wing discs of each genotype (regeneration and control) and condition (0h, 15h, 25h). Two replicates of each sample were done. RNA was extracted with ZR RNA microprep and RNA clean and concentrator Kit from (Zymo Research).
Illumina truSeq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Data was processed using grape-nf (available at https://github.com/guigolab/grape-nf).
RNA-seq reads were aligned to the fly genome (dm6) using STAR 2.4.0j software with up to 4 mismatches per paired alignment using the FlyBase genome annotation r6.05
Gene and transcripts FPKMs were quantified using RSEM.
Genome_build: dm6
Supplementary_files_format_and_content: raw data in fastq, process data in bigWig
|
| |
|
| Submission date |
Aug 19, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Montserrat Corominas |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Barcelona
|
| Department |
Genètica, Microbiologia i estadÃstica
|
| Street address |
Diagonal 643
|
| City |
Barcelona |
| State/province |
Catalonia |
| ZIP/Postal code |
08028 |
| Country |
Spain |
| |
|
| Platform ID |
GPL19132 |
| Series (2) |
| GSE102840 |
Time-course transcriptome of regeneration [RNA-Seq] |
| GSE102841 |
Time-course chromatin accessibility and transcriptome in regeneration |
|
| Relations |
| BioSample |
SAMN07520975 |
| SRA |
SRX3104593 |
