|
| Status |
Public on May 08, 2024 |
| Title |
AL2669_d4_siPRRX1_N1 |
| Sample type |
SRA |
| |
|
| Source name |
MDCK-NBL2 cell line
|
| Organism |
Canis lupus familiaris |
| Characteristics |
cell type: Madin-Darby Canine Kidney (MDCK) cells
cell line: MDCK-NBL2
treatment: TGFb (5mg/ml) + siPRRX1
time: 4 days
replicate: 1
description (phenotype): partial EMT
|
| Treatment protocol |
Detailed protocol available in the material and methods part from Youssef et al. 2021
|
| Growth protocol |
Detailed protocol available in the material and methods part from Youssef et al. 2021
|
| Extracted molecule |
total RNA |
| Extraction protocol |
illustra RNAspin (GE Healthcare)
mRNA (stranded)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
NIETO_02_KKY_14
|
| Data processing |
Reads were aligned to CanFam3.1 genome annotation (Ensembl v97) using STAR (2.5.3a)
Quality control of sequenced reads was performed using FastQC (Babraham Institute)
Gene expression was quantified using RSEM (1.3.0)
Genome_build: CanFam3.1
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Jan 09, 2021 |
| Last update date |
May 08, 2024 |
| Contact name |
Angela Nieto |
| E-mail(s) |
anieto@umh.es
|
| Organization name |
Instituto de Neurociencias (CSIC-UMH)
|
| Department |
Developmental Neurobiology
|
| Lab |
Cell Movements in Development and Disease
|
| Street address |
Av. Ramón y Cajal s/n
|
| City |
San Juan de Alicante |
| State/province |
Alicante |
| ZIP/Postal code |
03550 |
| Country |
Spain |
| |
|
| Platform ID |
GPL24229 |
| Series (1) |
| GSE164488 |
Two distinct epithelial-to-mesenchymal transition programs control invasion and inflammation in segregated tumor cell populations |
|
| Relations |
| BioSample |
SAMN17267665 |
| SRA |
SRX9811175 |
