|
| Status |
Public on Mar 01, 2017 |
| Title |
K562 SAHA 6h rep2 |
| Sample type |
RNA |
| |
|
| Source name |
AML cell lines
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: K562
treatment: SAHA (Merck)
|
| Treatment protocol |
SAHA (Merck) and MS27-275 (Bayer-Schering AG) were dissolved in DMSO (Sigma) and used at 5x10-6 M for 6 hours.
|
| Growth protocol |
The AML cell lines U937, NB4 and K562 were cultured in RPMI with 10% foetal bovine serum (FBS)(SIGMA), 2 mM L-glutamine (Euroclone) and antibiotics (100 U/mL penicillin, 100 µg/mL streptomycin and 250 ng/mL amphotericin-B). The blasts were cultured in RPMI with 20% FBS (Sigma), 2 mM L-glutamine (Euroclone) and antibiotics (100 U/mL penicillin, 100 µg/mL streptomycin and 250 ng/mL amphotericin-B).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
replicate 2
|
| Data processing |
Data were pre-processed using the Bioconductor package lumi, normalized using quantile method and signals were log2-transformed
|
| |
|
| Submission date |
Feb 11, 2014 |
| Last update date |
Mar 01, 2017 |
| Contact name |
Angela Nebbioso |
| E-mail(s) |
angela.nebbioso@unina2.it
|
| Organization name |
Seconda Università degli Studi di Napoli
|
| Department |
Biophysics, Biochemestry and General Patology
|
| Street address |
Vico Luigi De Crecchio 7
|
| City |
Naples |
| State/province |
Italy |
| ZIP/Postal code |
80138 |
| Country |
Italy |
| |
|
| Platform ID |
GPL6104 |
| Series (2) |
| GSE54871 |
Gene expression analysis in AML cell lines and in primary blasts of AML patients after 6 hours of HDACi treatment. |
| GSE55154 |
Gene expression analysis in AML cells lines, AML primary blasts and in CD34+ normal progenitors after 6-hour exposure to HDACi |
|
