|
| Status |
Public on Dec 21, 2015 |
| Title |
UD, biological rep1 (gene level) |
| Sample type |
RNA |
| |
|
| Source name |
Undifferentiated CESCs
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Undifferentiated CESCs
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Fragmented single-stranded DNA was labeled using DNA labeling reagent according to standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
After fragmentation, 5 ug cDNA were hybridized for 16hr at 45C in 60rpm of spanning on Human Transcriptome Array 2.0. The microarray was washed and stained using Affymetrix GeneChip Command Console (AGCC) software.
|
| Scan protocol |
The microarray was scanned using AGCC software.
|
| Description |
Gene expression data from human CESCs
|
| Data processing |
We used Expression Console software to pre-treat .CEL files through Robust Multichip Analysis (RMA) algorithm (3), including background correction, probeset signal integration, quantile normalization. After pretreatment, the obtained chp files were analyzed by Transcriptome Analysis Console software to identify differentially expressed genes (DEGs) and alternatively spliced genes (ASGs).
|
| |
|
| Submission date |
Dec 05, 2014 |
| Last update date |
Dec 21, 2015 |
| Contact name |
Jin Shang |
| Organization name |
Third Military Medical University
|
| Street address |
No. 183, Xinqiao Main Street
|
| City |
Chongqing |
| ZIP/Postal code |
400038 |
| Country |
China |
| |
|
| Platform ID |
GPL17586 |
| Series (1) |
| GSE63897 |
Gene expression and alternative splicing data from human cartilage endplate-derived stem cells |
|
| Relations |
| Alternative to |
GSM1559600 (exon level analysis) |
