|
| Status |
Public on Jan 29, 2022 |
| Title |
DMS53 siNEUROD1 T1 |
| Sample type |
SRA |
| |
|
| Source name |
Cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: DMS-53
treatment: siRNA NEUROD1
treatment: treated with biotinilated PM01183 50nM for 4 hours
|
| Treatment protocol |
DMS53 cells were seeded in 15 cm dishes and grown to subconfluency before treatment with 50nM Lurbinectedin.
|
| Growth protocol |
All cell lines were cultured in the medium and conditions recommended by the supplier and supplemented with 10%FBS, 2nmol/L L-glutamine, and penicillin-streptomycin mix (Sigma).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
none provided by the submitter
RNA-seq polyA
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina MiniSeq |
| |
|
| Data processing |
Processed using nf-core RNA-Seq pipeline v1.3.3
Alingment with HISAT 2.1.0
Read count with Subread featureCounts v1.6.4
DEG analisyed with Deseq2 from featurecounts matrix
FPKM calculated with Stringtie 1.3.5
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include reads values for each Sample
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Jun 28, 2021 |
| Last update date |
Jan 29, 2022 |
| Contact name |
Federico Costanzo |
| E-mail(s) |
[email protected]
|
| Organization name |
Institute of Oncology Research IOR
|
| Street address |
Via Vela 6
|
| City |
Bellinzona |
| ZIP/Postal code |
6500 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL22790 |
| Series (2) |
|
| Relations |
| BioSample |
SAMN19923427 |
| SRA |
SRX11245154 |
