|
| Status |
Public on Oct 23, 2014 |
| Title |
STEMI patient, blood collected 6 months after MI (Patient 28) |
| Sample type |
RNA |
| |
|
| Source name |
peripheral blood mononuclear cells
|
| Organism |
Homo sapiens |
| Characteristics |
individual: Patient 28
cardiovascular disease state: STEMI
collection of blood samples: follow-up (6 months after MI)
cell type: PBMC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from peripheral blood mononuclear cells (PBMCs) samples was isolated using MagNA Pure Compact System (Roche Diagnostics GmbH, Germany) according to the manufacturer's recommendations. The amount of RNA was quantified by UV absorption (Nanodrop, LabTech International, UK) and its quality was determined using an Agilent 2100 Bioanalizer© and RNA 6000 Nano Kit (Agilent, Santa Clara, CA, USA). For all RNA samples the RNA integrity number value was above eight.
|
| Label |
biotin
|
| Label protocol |
Biotin-labeled ssDNA were prepared from 100 ng total RNA by using the Ambion® WT Expression Kit followed by Affymetrix® GeneChip® WT Terminal Labeling Kit according to the manufacturer's instruction.
|
| |
|
| Hybridization protocol |
Following fragmentation, 5.5 ug ssDNA were hybridized for 16 hr at 45˚C on GeneChip® Human Gene 1.0 ST Array according to standard Affymetrix protocol. Chips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using an Affymetrix GCS 3000 GeneArray Scanner.
|
| Description |
Sample name: Patient 28_6 months
Gene expression data from peripheral blood mononuclear cells (PBMCs) of patient with STEMI 6 months follow-up
|
| Data processing |
The data were analyzed with the Partek Genomics Suite software (Partek Inc, St. Louis, MO, USA) using RMA (robust multiarray average) background correction, quantile normalization, median polish method for probesets summarization, and log values of probes signals using base 2.
|
| |
|
| Submission date |
Oct 23, 2014 |
| Last update date |
Oct 23, 2014 |
| Contact name |
Beata Burzynska |
| E-mail(s) |
atka@ibb.waw.pl
|
| Organization name |
Institute of Biochemistry and Biophysics
|
| Department |
Genetics
|
| Street address |
Pawinskiego 5A
|
| City |
Warsaw |
| ZIP/Postal code |
02-106 |
| Country |
Poland |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE62646 |
Altered gene expression pattern in peripheral blood mononuclear cells in patients with acute myocardial infarction |
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