|
| Status |
Public on Jun 15, 2020 |
| Title |
CM3-3d |
| Sample type |
SRA |
| |
|
| Source name |
PBMC
|
| Organism |
Macaca fascicularis |
| Characteristics |
tissue: PBMC
gender: Female
infection status: 3 days post infection with SARS-CoV-2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent (Invitrogen). 500 ng of total RNA was used for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using LEXOGEN Quant-Seq Library Prep Kit (Cat#001.24) standard protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Illumina Casava1.8 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence(using fastx_trimmer), then mapped to Macaca mulatta (NCBI) whole genome using Bowtie2
Read count extraction and nomalization were performed using edgeR.
Genome_build: Macaca mulatta (NCBI)
Supplementary_files_format_and_content: tab-delimited text files include read count values for each Sample
|
| |
|
| Submission date |
Jun 14, 2020 |
| Last update date |
Jun 15, 2020 |
| Contact name |
Hanseul Oh |
| E-mail(s) |
[email protected]
|
| Organization name |
Korea Research Institute of Bioscience & Biotechnology
|
| Street address |
30 Yeongudanji-ro, Ochang-eup, Cheongwon-gu,
|
| City |
Cheongju-si |
| State/province |
Chungcheongbuk-do |
| ZIP/Postal code |
28116 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL22523 |
| Series (1) |
| GSE152439 |
RNA sequence of PBMCs of macaques infected with SARS-CoV-2 |
|
| Relations |
| BioSample |
SAMN15233533 |
| SRA |
SRX8543257 |
