 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Oct 13, 2021 |
| Title |
RNAseq.ctrl.st5.rep2 |
| Sample type |
SRA |
| |
|
| Source name |
embryos
|
| Organism |
Drosophila melanogaster |
| Characteristics |
genotype: t180
timepoint: stage5
assay: RNA-seq
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction was performed as in Zenk et al., 2017. Briefly, chloroform extraction was performed followed RNA precipitation with Isopropanol. Samples were then washed twice with 80% EtOH and resuspended in TURBO DNase (Ambion AM2238) reaction mix. Finally, DNase was inactivated.
RNA libraries were prepared using the Illumina TruSeq Stranded Total RNA protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Data processing |
Raw short read sequencing was processed uniformly using default parameters of snakepipes-v2.0.2 (Bhardwaj et al., 2019)). RNA-seq was processed using the mRNA-seq workflow(–trim option).
Genome_build: dm6, ensembl 96
Supplementary_files_format_and_content: Supplementary file is a featureCounts table of number of reads per genes (stranded)
|
| |
|
| Submission date |
Nov 16, 2020 |
| Last update date |
Oct 13, 2021 |
| Contact name |
Nicola Iovino |
| E-mail(s) |
[email protected]
|
| Organization name |
MPI of Immunobiology and Epigenetics
|
| Street address |
Stübeweg 51
|
| City |
Freiburg |
| ZIP/Postal code |
79108 |
| Country |
Germany |
| |
|
| Platform ID |
GPL23323 |
| Series (2) |
| GSE161593 |
RNA-seq of staged embryos |
| GSE161594 |
Histone variant H2A.Z regulates zygotic genome activation |
|
| Relations |
| BioSample |
SAMN16813057 |
| SRA |
SRX9518366 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
|
|
|
|
 |
