|
| Status |
Public on Dec 11, 2017 |
| Title |
Zygote_S6 |
| Sample type |
SRA |
| |
|
| Source name |
Embryonic cell
|
| Organism |
Gallus gallus |
| Characteristics |
developmental stage: Zygote
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was prepared from the samples and Total RNA was extracted using TRIzol reagent (MRC).
Libraries were prepared based on Illimina instruction
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Adaptor sequences and low quality bases with PHERD scores (Q) ≤ 30 were removed. And we employed Trimmomatic for removal of adapter sequences.
The read mapping into assembled transcriptome was performed using tophat2
Finally, HTSeq-count was employed for quantification.
Genome_build: We used watermelon reference genome (97103) version 1 in Curcurbit Genomics Database.
Supplementary_files_format_and_content: TSV file for each sample
|
| |
|
| Submission date |
Sep 08, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
JAE YONG HAN |
| E-mail(s) |
[email protected]
|
| Phone |
82-2-880-4810
|
| Organization name |
Seoul National University
|
| Department |
Department of Agricultural Biotechnology
|
| Lab |
Animal Genetic Engineering
|
| Street address |
1 Gwanak-ro, Gwanak-gu
|
| City |
Seoul |
| ZIP/Postal code |
08826 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL19787 |
| Series (1) |
| GSE86592 |
Developmental programs in chicken early embryos by whole transcriptome analysis. |
|
| Relations |
| BioSample |
SAMN05752681 |
| SRA |
SRX2148917 |
