|
| Status |
Public on Dec 31, 2023 |
| Title |
Untransplanted kidney of GalT-/-;hCD39;hCD55 pig |
| Sample type |
SRA |
| |
|
| Source name |
Kidney
|
| Organism |
Sus scrofa |
| Characteristics |
tissue: Kidney
genotype: GalT-/-;hCD39;hCD55
treatment: Untransplanted
|
| Extracted molecule |
total RNA |
| Extraction protocol |
2 μg total RNA was extracted from pig normal kidney (untransplanted) and transplanted kidney using the Phenol/Chloroform extraction method.
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 Sus Scrofa (NCBI) whole genome using Bowtie2
Read count extraction using bedtools.
Assembly: Sscrofa11.1
Supplementary files format and content: tab-delimited text files include read count values for each Sample
|
| |
|
| Submission date |
Aug 03, 2023 |
| Last update date |
Dec 31, 2023 |
| Contact name |
Hanna Suh |
| E-mail(s) |
hanna.suh@kitox.re.kr
|
| Organization name |
Korea institute of toxicology
|
| Street address |
30, Baekhak 1-gil, Jeongeup-si, Jeollabuk-do, Republic of Korea
|
| City |
Jeongeup-si |
| ZIP/Postal code |
56212 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL20983 |
| Series (1) |
| GSE240012 |
A comparison between GalT-/-;hCD39;hCD55 and GalT-/-;hCD39;hCD46;hCD55;TBM pig kidney transplanted in non-human primates |
|
| Relations |
| BioSample |
SAMN36828388 |
| SRA |
SRX21239076 |
