|
| Status |
Public on Jul 19, 2022 |
| Title |
HeLa, pv, 3 |
| Sample type |
SRA |
| |
|
| Source name |
HeLa
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa
cell type: human cervical carcinoma cell
genotype: control
treatment: pVITRO2-hygro-mcs vector transfection
|
| Treatment protocol |
transfected with the recombinant pVITRO2-mcs vector (InvivoGen, NY, USA) containing HLA-G cDNA or empty vector by Lipofectamine 3000 reagent (InvitroGen, NY, USA) according to the manual instructions.
The transfectants were selected with 50 μg/ml hygromycin B (InvitroGen, NY, USA)
|
| Growth protocol |
The human cervical carcinoma cell lines HeLa were maintained in DMEM supplemented with 10% heat-inactivated fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1.3 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using BGI Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Description |
HeLa_pv_3
|
| Data processing |
BGISEQ-500
Sequence reads were trimmed for adaptor sequence/low-quality sequence (parameter- Quality limit: 0.05)
Trimmed sequence reads were mapped to GrCM38/mm10 using BGISEQ-500 genomic benchwork (parameters- mismath cost: 2 insertion cost: 3 deletion cost: 3 length fraction: 0.8 similarity fraction: 0.8)
Read count extraction and normalization were performed using BGISEQ-500 genomic benchwork
Assembly: mm10
Supplementary files format and content: tab-delimited text file includes FPKM values for each Sample
|
| |
|
| Submission date |
Jul 13, 2022 |
| Last update date |
Jul 19, 2022 |
| Contact name |
Hui-Hui Xu |
| E-mail(s) |
[email protected]
|
| Phone |
+86-13757609637
|
| Organization name |
Taizhou Hospital
|
| Street address |
150
|
| City |
Linhai |
| State/province |
Zhejiang province |
| ZIP/Postal code |
317000 |
| Country |
China |
| |
|
| Platform ID |
GPL23227 |
| Series (2) |
| GSE208117 |
A novel prognostic risk model for cervical cancer based on immune checkpoint HLA-G-driven differentially expressed genes [HeLa] |
| GSE208119 |
A novel prognostic risk model for cervical cancer based on immune checkpoint HLA-G-driven differentially expressed genes |
|
| Relations |
| BioSample |
SAMN29714997 |
| SRA |
SRX16176061 |
