|
| Status |
Public on Jul 02, 2018 |
| Title |
ACT88F-W1118 D30 Intestine |
| Sample type |
SRA |
| |
|
| Source name |
Intestine
|
| Organism |
Drosophila melanogaster |
| Characteristics |
age: 30 days
tissue: Intestine
disease state: control
|
| Growth protocol |
All flies were reared on standard yeast and cornmeal based food at 25°C and 65% humidity on a 12 hr light/dark cycle, The standard yeast and cornmeal based food was made with the following protocol: 14g Agar/165.4g Malt Extract/ 41.4g Dry yeast/ 78.2g Cornmeal/ 4.7ml propionic acid/ 3g Methyl 4-Hydroxybenzoate/ 1.5L water.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Intact fly thorax and intestines were dissected in PBS. Total RNA was extracted using Trizol reagent and used as template to generate sample libraries for RNA sequencing
sample libraries for RNA sequencing were generated using the TruSeq Stranded Total RNA Library Prep Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Sample libraries were sequenced using the Illumina HiSeq 2500.
Sequence cluster identification, quality pre-filtering, base calling and uncertainty assessment were done in real time using Illumina's HCS 2.2.58 and RTA 1.18.64 software with default parameter settings.
Between 7 and 12 million (1X50) base pair reads were generated per library and mapped to the Drosophila genome (Release 6).
Expression was recorded as RPKM: reads per kbp per million reads.
Gene Ontology clustering analysis was performed using FlyMine
Genome_build: Drosophila genome (Release 6)
Supplementary_files_format_and_content: Expression was recorded as RPKM: reads per kbp per million reads.
|
| |
|
| Submission date |
Feb 28, 2018 |
| Last update date |
Jul 03, 2018 |
| Contact name |
Jason Karpac |
| E-mail(s) |
Karpac@Tamhsc.edu
|
| Organization name |
Texas A&M University Health Sciences Center
|
| Department |
Molecular and Cellular Medicine
|
| Street address |
Reynolds Medical Building
|
| City |
College Station |
| State/province |
Texas |
| ZIP/Postal code |
77843 |
| Country |
USA |
| |
|
| Platform ID |
GPL17275 |
| Series (1) |
| GSE111248 |
A Virus-acquired Host Cytokine Controls Systemic Aging by Antagonizing Apoptosis |
|
| Relations |
| BioSample |
SAMN08623477 |
| SRA |
SRX3751255 |
