|
| Status |
Public on Jul 30, 2024 |
| Title |
DKK3_02 |
| Sample type |
SRA |
| |
|
| Source name |
Tumor
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Tumor
genotype: hDKK3_OE
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1ug of total RNA was used for the construction of sequencing libraries.
The clean RNA samples were used for library preparation in the Genomic and RNA Profling Core, Baylor College of Medicine. Libraries were constructed using a Truseq library preparation kit (Illumina, USA) following the manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The raw sequence reads were mapped to GRCm38 using STAR (V2.5.3a).
The alignmented bam file were performed using markduplicated.
The FPRM value extract were performed using cufflinks.
Assembly: GRCm38
Supplementary files format and content: tab-delimited text file FPKM counts for each samples
Supplementary files format and content: tab-delimited text file Cufflinks counts for each samples
|
| |
|
| Submission date |
Jul 30, 2024 |
| Last update date |
Jul 30, 2024 |
| Contact name |
Sung Wook Kang |
| E-mail(s) |
u242688@bcm.edu
|
| Phone |
504-826-0629
|
| Organization name |
Baylor college of medicine
|
| Department |
Surgery
|
| Lab |
SOIL
|
| Street address |
one plaza
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE273448 |
Ad-SGE-DKK3 Gene Therapy Against Resistance to Immune Checkpoint Blockade in Malignant Mesothelioma |
|
| Relations |
| BioSample |
SAMN42914497 |
| SRA |
SRX25514826 |
