|
| Status |
Public on Mar 01, 2017 |
| Title |
Vector2 |
| Sample type |
RNA |
| |
|
| Source name |
Vector, replicate 2
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: breast tumor cells
cell line: MDA-MB-231-Luc-D3H1
|
| Growth protocol |
MDA231 cells were maintained according to ATCC recommended medium at 37 ºC in the presence of 5% CO2 and were harvested at about 70% confluence.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA is isolated using TRIzol reagent (Invitrogen, Carlsbad, CA) and further purified by RNeasy kit (Qiagen, Valencia, CA) according to manufacturer’s instructions. The quality of total RNA is assessed by the ratios OD260/OD280 and OD260/OD230 and using an Agilent 2100 Bioanalyzer (Agilent, Santa Clara, CA).
|
| Label |
biotin
|
| Label protocol |
250 ng total RNA samples are labeled and hybridized to the Affymetrix Human Gene 2.0 ST Array according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). For each condition, XX biological replicate samples were used for microarray experiments.
|
| |
|
| Hybridization protocol |
Samples are hybridized for 16 hours at 45º C and washed according to Affymetrix procedure.
|
| Scan protocol |
The hybridized slides are scanned on Affymetrix scanner 700G
|
| Description |
Gene expression of Vector Control, replicate 2
|
| Data processing |
Scanned microarray images were analyzed using the Affymetrix Gene Expression Console with RMA (Robust Multi-array Average) normalization algorithm. Further statistical Analyses were performed using BRB-ArrayTools developed by Dr. Richard Simon and BRB-ArrayTools Development Team. Gene classification into ontology categories (OG) was performed using BLAST2GO® version 2.6.4 (Biobam Bioinformatics, Valencia, Spain).
|
| |
|
| Submission date |
Mar 15, 2016 |
| Last update date |
Mar 01, 2017 |
| Contact name |
Xiaowei Chen |
| E-mail(s) |
xiaowei.chen@fccc.edu
|
| Organization name |
Fox Chase Cancer Center
|
| Street address |
333 Cottman Avenue
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19111 |
| Country |
USA |
| |
|
| Platform ID |
GPL16686 |
| Series (1) |
| GSE79214 |
A novel metastasis–associated lncRNA destabilizes p21 through cooperative interactions with the NF90/NF45 complex |
|
