|
| Status |
Public on Dec 22, 2011 |
| Title |
siSON 1 |
| Sample type |
RNA |
| |
|
| Source name |
HeLa
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa
sirna: SON
|
| Treatment protocol |
HeLa cells were transfected with a control siRNA (siLuciferase) or siRNA against SON for 48 hours. Knockdown of SON was confirmed prior to microarray sample processing.
|
| Growth protocol |
HeLa cells were maintained in DMEM supplemented with penicillin/streptomycin and 10% fetal bovine serum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from 560 µL of saliva supernatant with the RNeasy Mini Kit (Qiagen), according to the manufacturer’s instructions. All samples were treated with TURBO DNA-free (Ambion) to remove trace amounts of genomic DNA.
|
| Label |
biotin
|
| Label protocol |
Whole Transcript (WT) Expression Array kit (Ambion) was used to generate biotinylated sense strand DNA targets from the isolated RNA as described in the kit protocol. DNA quality and quantity was analyzed by nanodrop spectrophotometry (Thermo Scientific) and subjected to fragmentation and labeling using the Affymetrix GeneChip WT terminal labeling kit (Affymetrix) according to kit protocols.
|
| |
|
| Hybridization protocol |
Samples were hybridized with GeneChip Human Exon 1.0 ST Arrays (Affymetrix) and scanned at the Wright State University Center for Genomics Research.
|
| Scan protocol |
Array scanning was performed according to the manufacturer's instruction (Affymetrix)
|
| Description |
Expression Results from AltAnalyze using constitutive exons
|
| Data processing |
Raw .cel files were analyzed with AltAnalyze. RMA was used for normalization within AltAnalyze.
|
| |
|
| Submission date |
Apr 17, 2011 |
| Last update date |
Dec 22, 2011 |
| Contact name |
Michael Markey |
| E-mail(s) |
michael.markey@wright.edu
|
| Phone |
937-775-4536
|
| Fax |
937-775-3031
|
| URL |
http://www.med.wright.edu/cgr/
|
| Organization name |
Wright State Unviersity
|
| Department |
Biochemistry and Molecular Biology
|
| Lab |
Center for Genomics Research
|
| Street address |
3640 Colonel Glenn Hwy.
|
| City |
Dayton |
| State/province |
OH |
| ZIP/Postal code |
45435 |
| Country |
USA |
| |
|
| Platform ID |
GPL5188 |
| Series (1) |
| GSE28672 |
Son Maintains Accurate Splicing of Pre-mRNAs Encoding Chromatin Modifiers |
|
