|
| Status |
Public on Nov 01, 2014 |
| Title |
HBM_12_uninfected |
| Sample type |
SRA |
| |
|
| Source name |
primary bone marrow derived mesenchymal progenitor cells
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: primary bone marrow derived mesenchymal progenitor cells
age: 13 years old
|
| Treatment protocol |
Cells were treated with 1ug/ml Doxycycline for 13 days prior to RNA extraction.
|
| Growth protocol |
Cells were grown in aMEM supplemented with 20% FBS.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
TriZol RNA extraction. PolyA selected, linker ligated and size excluded cDNA was used.
3seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Data processing |
DNA Nexus
Sequenced reads were mapped to hg19 whole genome using DNA Nexus.
Fragments Per Kilobase of exon per Megabase of library size (FPKM) were calculated using ngsutils
Genome_build: hg19
Supplementary_files_format_and_content: FPKM tracking file with FPKM for each sample
|
| |
|
| Submission date |
Aug 28, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Dedeepya Vaka |
| E-mail(s) |
[email protected]
|
| Organization name |
Stanford
|
| Department |
Pediatrics
|
| Lab |
Alejandro Sweet-Cordero
|
| Street address |
265 Campus Drive
|
| City |
Palo Alto |
| ZIP/Postal code |
94035 |
| Country |
USA |
| |
|
| Platform ID |
GPL9115 |
| Series (2) |
| GSE60889 |
pMPC EF vs control 3seq |
| GSE60891 |
The long non-coding RNA lnc277 mediates a repressive gene signature in Ewing's sarcoma and is required for oncogenesis |
|
| Relations |
| BioSample |
SAMN03012764 |
| SRA |
SRX689281 |
