|
| Status |
Public on Feb 15, 2023 |
| Title |
3D4/21, untreated, RNA-Seq, rep1 [rRNA-deplete.00h_r1] |
| Sample type |
SRA |
| |
|
| Source name |
3D4/21
|
| Organism |
Sus scrofa |
| Characteristics |
cell line: 3D4/21
genotype: Wild-type
treatment: none; untreated
molecule type: polyA-deplete RNA
|
| Treatment protocol |
GSK126 was added to RPMI 1640 medium to make its final concentration as 5 μmol/L. The same volume of DMSO was added for the untreated control group. The control group and GSK126 treated group are collected for subsequent experiments.
|
| Growth protocol |
Porcine 3D4/21 alveolar macrophages were cultured in 1640 medium with 10% fetal bovine serum and 1% penicillin-streptomycin (100×), incubated in a constant temperature incubator with 37 ℃, 5% CO2 and saturated humidity.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA for porcine alveolar macrophage was extracted using the FastPure® Cell/Issue Total RNA Isolation Kit BOX2 Kit(Vazyme).
RNA-Seq library is constructed by BGI company using the rRNA-depletion protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
MGISEQ-2000RS |
| |
|
| Data processing |
Raw reads were trimmed with Trim Galore v0.6.4. Transcript Per Million (TPM) values were calculated with RSEM v1.3.2 with default settings.
Assembly: Sscrofa11
Supplementary files format and content: tab-delimited text files include TPM and FPKM values for each sample
|
| |
|
| Submission date |
Dec 21, 2022 |
| Last update date |
Feb 15, 2023 |
| Contact name |
Z LL |
| E-mail(s) |
MZ120201482@stu.yzu.edu.cn
|
| Phone |
13283789136
|
| Organization name |
yangzhouaxue
|
| Street address |
shuangqiaojiedao
|
| City |
yangzhou |
| ZIP/Postal code |
225009 |
| Country |
China |
| |
|
| Platform ID |
GPL32965 |
| Series (2) |
| GSE221478 |
Inhibition of EZH2 causes retrotransposon derepression and immune activation in porcine lung alveolar macrophages [rRNA-depleted RNA-seq] |
| GSE221479 |
Inhibition of EZH2 causes retrotransposon derepression and immune activation in porcine lung alveolar macrophages. |
|
| Relations |
| BioSample |
SAMN32340964 |
| SRA |
SRX18799753 |
