|
| Status |
Public on May 24, 2024 |
| Title |
HeLa GAA-kd A |
| Sample type |
SRA |
| |
|
| Source name |
HeLa cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa cells
genotype: GAA-kd
treatment: DMEM+10percent FBS + 1percent P/S
group: lysosomal defect
|
| Growth protocol |
DMEM + 10% FBS + 1% P/S
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TrueSeq RNA Sample Preparation Kit (Illumina, Netherlands) was used to prepare samples for NGS analysis. Accurate quantitation of cDNA libraries was performed by using the QuantiFluorTM dsDNA System (Promega, Germany). The size range of cDNA libraries was determined applying the DNA 1000 chip on the Bioanalyzer 2100 from Agilent (280 bp).
cDNA libraries were amplified and sequenced by using the cBot and HiSeq 1000 from Illumina (SR, 1×50bp).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1000 |
| |
|
| Description |
GAA-kd 1
HeLa Lyso samples - all data normalized
|
| Data processing |
Strand NGS for alignement, quantification and normalization
Assembly: ENSEMBL GRCh38.p5
Supplementary files format and content: gene expression normalized per gene
|
| |
|
| Submission date |
Feb 23, 2024 |
| Last update date |
May 24, 2024 |
| Contact name |
Nuno Raimundo |
| Organization name |
Penn State College of Medicine
|
| Department |
Cellular and Molecular Physiology
|
| Lab |
C4769
|
| Street address |
500 University Dr, College Of Medicine, Room C4769
|
| City |
Hershey |
| State/province |
PA |
| ZIP/Postal code |
17033 |
| Country |
USA |
| |
|
| Platform ID |
GPL15433 |
| Series (1) |
| GSE256471 |
Up-regulation of cholesterol synthesis by lysosomal defects requires a functional mitochondrial respiratory chain |
|
| Relations |
| BioSample |
SAMN40079020 |
| SRA |
SRX23718606 |
