|
| Status |
Public on Jun 07, 2023 |
| Title |
Cybrid1_J2 |
| Sample type |
SRA |
| |
|
| Source name |
Osteosarcoma
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: 143B
type of tissue: Tumour cell line
cell type: Osteosarcoma 143B
mitochondrial haplogroup: J2
|
| Treatment protocol |
Cold PBS wash. Twice.
|
| Growth protocol |
Growth with DMEM. Subconfluent cells were tripsinised.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA isolation kit (mirVana™ miRNA Isolation Kit)
Illumina TruSeq mRNA library preparation
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
106J
HPG_5
|
| Data processing |
Data filtering: seqtk 1.0; Trim-galore 0.3.5; Perl script to remove poly-N tails
Mapping: tophat-2.0.6.Linux_x86_64
Counting reads mapped to genes: BEDTools 2.17.0
Testing for differentially expressed genes: DESeq2 1.0.19
Genome_build: hg19
Supplementary_files_format_and_content: Tab-delimited text files Gene count file
|
| |
|
| Submission date |
Oct 14, 2015 |
| Last update date |
Jun 07, 2023 |
| Contact name |
Aurora Gomez Duran |
| E-mail(s) |
auroragomezdu@gmail.com
|
| Phone |
696876193
|
| Organization name |
Centro de Investigaciones Biologicas
|
| Department |
Molecular Biomedicine
|
| Lab |
MitoPhenomics
|
| Street address |
Maria maeztu
|
| City |
Madrid |
| State/province |
Madrid |
| ZIP/Postal code |
28040 |
| Country |
Spain |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE74009 |
Mitochondrial transfer disrupts mTORC1/Akt signaling modulating biogenesis and respiration |
|
| Relations |
| BioSample |
SAMN04166256 |
| SRA |
SRX1334847 |
