|
Status |
Public on Aug 15, 2021 |
Title |
E811, Embryo |
Sample type |
SRA |
|
|
Source name |
Embryo
|
Organism |
Capreolus capreolus |
Characteristics |
number of embryonic cells: 7083 developmental stage: Pre-elongation
|
Extracted molecule |
total RNA |
Extraction protocol |
Qiagen AllPrep DNA/RNA Micro Kit Clonetech pico-input mammalian total RNA kit
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
E811.fastq
|
Data processing |
Trim Galore! for adaptor clipping, removal of sequences shorter than 50 bp and low-quality end score of 30 FastUniq tool for removal of duplicates Read mapping with Salmon against the roe deer transcriptome Count table filtering with CPM cut-off of 3.0 and sample cut-off of 5 Differential gene expression with ImpulseDE2 Genome_build: De novo assembled roe deer transcriptome Supplementary_files_format_and_content: TPM_Embryos.xlsx
|
|
|
Submission date |
Sep 30, 2020 |
Last update date |
Aug 15, 2021 |
Contact name |
Vera van der Weijden |
Organization name |
Max Planck Institute for Molecular Genetics
|
Department |
Department of Genome Regulation
|
Lab |
Sofja Kovaleskaja Research Group Stem Cell Chromatin
|
Street address |
Ihnestraße 63-73
|
City |
Berlin |
ZIP/Postal code |
14195 |
Country |
Germany |
|
|
Platform ID |
GPL29202 |
Series (2) |
GSE158805 |
Amino acids activate mTORC1 to release roe deer embryos from decelerated proliferation during diapause [Embryo] |
GSE158806 |
Amino acids activate mTORC1 to release roe deer embryos from decelerated proliferation during diapause |
|
Relations |
BioSample |
SAMN16303766 |
SRA |
SRX9219755 |