|
| Status |
Public on Jul 01, 2015 |
| Title |
Ad-SOX9-RNAseq_2 |
| Sample type |
SRA |
| |
|
| Source name |
SOX9 adeno-viral overexpression hDFs
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: dermal fibroblast cells (hDF)
infected with: SOX9 adeno-virus
isolation stage: day 2 after infection
|
| Treatment protocol |
Adenoviral overexpressing SOX9 or eGFP were infected to hDF cells at MOI=50
|
| Growth protocol |
Human dermal fibroblast cells (hDF) were maintained in DMEM/10%FBS with antibiotics.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were isolated with TRIZOL Reagent and treated with DNase I. Treated RNAs were then purified by RNeasy Mini Kit from Qiagen according to manufacturer's instruction
Library were constructed with Truseq Standard mRNA Sample Prep Kit Illumina according to manufacture's instruction
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
RNA-seq libraries were sequenced on Illumina Next-seq 500
Fastq output from sequencing were processed by RNA express (V1.0) App on Illumina basespace website using Deseq programs
Genome_build: Human genome hg19
Supplementary_files_format_and_content: Normalized sequences reads count in csv format; Gene fold enrichment comaprison in csv format
|
| |
|
| Submission date |
May 21, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Xinjun He |
| E-mail(s) |
xinjun.he@med.usc.edu
|
| Phone |
323-442-8077
|
| Organization name |
University of Southern California
|
| Department |
BROAD CIRM Center
|
| Street address |
1425 San Pablo St
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90033 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE69110 |
Distinct regulatory programs for Sox9 in transcriptional regulation of the developing mammalian chondrocyte [RNA-seq] |
| GSE69111 |
Distinct regulatory programs for Sox9 in transcriptional regulation of the developing mammalian chondrocyte |
|
| Relations |
| BioSample |
SAMN03703593 |
| SRA |
SRX1035125 |
