|
| Status |
Public on Nov 22, 2022 |
| Title |
PBS 1 |
| Sample type |
SRA |
| |
|
| Source name |
xenografted tumor
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: xenografted tumor
cell line: K562
cell type: leukemia cells
genotype: wt
treatment: PBS
|
| Treatment protocol |
1) PBS group received PBS (100 μL/injection); 2) AZA group received intra-tumoural injections of 5-Aza (Sigma) (1 mg/kg injection/mouse in 100 μL/injection); 3) Ce-49 sh group received intra-tumoural injections of Ce-49 sh loaded GenVoy LNPs (0.3 mg/kg injection/mouse in 100 μL/injection). Treatments were performed daily for 10 days.
|
| Growth protocol |
K562 cells grown in RPMI supplemented with 10% FBS and injected subcutaneously into the flank of NGS mice
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction
Standard RNA-seq proocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
DNBSEQ-G400 |
| |
|
| Description |
BGI_Hong Kong
|
| Data processing |
STAR v2.7.9
Sequence reads were mapped to referene sequene (hg19) with default setting
Read count extraction were performed using Subread (ver2.0.3)'s featureCount with Gencode v19 annoation database.
Assembly: hg19
Supplementary files format and content: tab-delimited text files include gene id, gene length, and raw count values for each Sample
|
| |
|
| Submission date |
Jun 07, 2022 |
| Last update date |
Nov 23, 2022 |
| Contact name |
Haiqing Li |
| E-mail(s) |
[email protected]
|
| Organization name |
City of Hope National Medical Center
|
| Department |
Shared Resources Department
|
| Lab |
Integrative Genomics Core Lab
|
| Street address |
1500 E Durate Rd
|
| City |
Duarte |
| State/province |
CA |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL28038 |
| Series (2) |
| GSE205646 |
Targeted systematic evolution of an RNA platform neutralizing DNMT1 function and controlling DNA methylation [RNA-seq] |
| GSE205655 |
Targeted systematic evolution of an RNA platform neutralizing DNMT1 function and controlling DNA methylation |
|
| Relations |
| BioSample |
SAMN28903527 |
| SRA |
SRX15625927 |
