|
| Status |
Public on Sep 03, 2014 |
| Title |
8226_LR5_treated4 |
| Sample type |
RNA |
| |
|
| Source name |
8226-LR5 treated
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: RPMI8226-LR5
phenotype: melphalan resistant
cells: 2 x 10 e 6
date: 10-May
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The Illumina TotalPrep RNA amplification Kit (Ambion Inc., Austin, TX) was used to amplify RNA for hybridization on Illumina BeadChips. To synthesize first strand cDNA by reverse transcription, we used totalRNA from each sample collected above. Following the second strand cDNA synthesis and cDNA purification steps, the in vitro transcription to synthesize cRNA was prepared overnight for 12 hours.
|
| Label |
treated-melphalan
|
| Label protocol |
not provided
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
resistant treated_biological replicate 5
|
| Data processing |
Raw data were exported from the Illumina GenomeStudio software to R using the Bioconductor package `lumi`. The data were quantile normalized and log2 transformed. The groups were compared using a t-test with empirical Bayes correction from the Bioconductor package `limma`. The fold change was used to demonstrate rate of changes in average gene expressions between studied groups. Statistical analyses were performed using the false discovery rate (FDR) with a significance threshold of 0.01.
|
| |
|
| Submission date |
Sep 02, 2014 |
| Last update date |
Sep 03, 2014 |
| Contact name |
Animesh Sharma |
| E-mail(s) |
sharma.animesh@gmail.com
|
| Phone |
72825335
|
| Organization name |
NTNU
|
| Department |
Cancer Research
|
| Lab |
PROMEC
|
| Street address |
Erlingskjallsons gate 1
|
| City |
Trondheim |
| State/province |
Trondelag |
| ZIP/Postal code |
7030 |
| Country |
Norway |
| |
|
| Platform ID |
GPL6947 |
| Series (1) |
| GSE60970 |
Modulation of cell metabolic pathways and oxidative stress signaling contribute to acquired melphalan resistance in multiple myeloma cells |
|
