|
| Status |
Public on Dec 21, 2021 |
| Title |
Embryo stage 12-14 WT_for_chiffon_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Drosophila embryo
|
| Organism |
Drosophila melanogaster |
| Characteristics |
developmental stage: Embryo stage 12-14
genotype: WT (act-gal4 x GFP)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Embryos were collected and 100ul of Trizol were added and embryos were flashed frozen in liquid nitrogen. RNA was extracted using Direct-zol RNA microPrep (Zymo Research)
Libraries were prepared following the Ovation RNA-seq System V2 (NuGEN)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Illumina Casava software used for basecalling.
Sequenced reads were trimmed for adaptor sequence with Trimmomatic, then mapped to dm6 whole genome using Hisat2 with parameters -p 8 --rna-strandness FR -x
Counts were identified for each gene using Htseq-count (v0.11.1) with default parameters.
Genome_build: dm6
Supplementary_files_format_and_content: raw counts
|
| |
|
| Submission date |
Jun 28, 2021 |
| Last update date |
Dec 21, 2021 |
| Contact name |
Vikki Marie Weake |
| E-mail(s) |
vweake@purdue.edu
|
| Organization name |
Purdue University
|
| Department |
Biochemistry
|
| Lab |
Weake
|
| Street address |
175 South University Street
|
| City |
West Lafayette |
| State/province |
IN |
| ZIP/Postal code |
47901 |
| Country |
USA |
| |
|
| Platform ID |
GPL19951 |
| Series (2) |
| GSE179061 |
iChiffon triggers global histone H3 acetylation and expression of developmental genes in Drosophila embryos [chiffon] |
| GSE179065 |
Chiffon triggers global histone H3 acetylation and expression of developmental genes in Drosophila embryos |
|
| Relations |
| BioSample |
SAMN19921235 |
| SRA |
SRX11245118 |
