|
| Status |
Public on Jul 20, 2017 |
| Title |
ADAR hypomorph flies grown in 18C replica 2 |
| Sample type |
SRA |
| |
|
| Source name |
fly heads
|
| Organism |
Drosophila melanogaster |
| Characteristics |
genotype/variation: ADAR hypomorph
temperature: 18C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol reagent (Sigma) and treated with DNase I (NEB) following the manufacturer's protocol.
Libraries preparation was based on a method previously described (Engreitz et al., 2013). The protocol was modified to get only 3' ends of the genes by applying polyA selection step after fragmentation and first linker ligation.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
ADAR_DGE_genes.gene.txt
|
| Data processing |
Alignment to the drosophila genome (dm3) using tophat
Counting number of reads for each gene at the 3' end using ESAT tool (Derr A. et al 2016)
Genome_build: dm3
Supplementary_files_format_and_content: Table with reads counts for each gene.
|
| |
|
| Submission date |
Feb 23, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Sebastian Kadener |
| E-mail(s) |
skadener@gmail.com
|
| Organization name |
Brandeis University
|
| Street address |
415 South Street
|
| City |
Waltham |
| State/province |
MA |
| ZIP/Postal code |
9190401 |
| Country |
USA |
| |
|
| Platform ID |
GPL19132 |
| Series (1) |
| GSE95313 |
3' RNA-seq of ADAR hypomorph flies grown in different temperatures |
|
| Relations |
| BioSample |
SAMN06439560 |
| SRA |
SRX2585868 |
