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Status |
Public on Jan 30, 2018 |
Title |
PBMC at baseline, ID 15 |
Sample type |
RNA |
|
|
Source name |
PBMCs from humans infected with HIV-1 before dosing with panobinostat
|
Organism |
Homo sapiens |
Characteristics |
drug dosing: Baseline gender: Male
|
Treatment protocol |
Fifteen patients infected with HIV-1 on fully suppressive ART was included in the clinical trial CLEAR. Each patient received 12 doses of 20 mg panobinostat with three doses given every other week for a total of 8 weeks. PBMCs fro gene expression analysis was samlpes at baseline, after 3 doses, 4 weeks after dosing and 6 months after dosing
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted from PBMCs lysed in PAX tubes using the protocol provided by the manufacturer. Quality assessment was conducted using a Nanodrop spectrophotometer (Thermo). Total RNA RIN values were between 7,5 and 9.
|
Label |
biotin
|
Label protocol |
One hundred ng of total RNA was processed and labelled in parallel with external control as described by manufacturer
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|
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Hybridization protocol |
Affymetrix Human Transcriptome Array 2.0 ST arrays were hybridized according to recommendations using Affymetrix WT plus kit.
|
Scan protocol |
GeneChips were scanned using the GeneTitan Scanner.
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Description |
Gene Expression data from total PBMC's harvested from blood of patients known to be infected with HIV-1.
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Data processing |
CEL files were processed using Expression Console to produce CHP files. The CHP files were then used in Transcriptomic Analysis Console (TAC) analysing the individual gene differential.
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|
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Submission date |
Jan 29, 2018 |
Last update date |
Jan 30, 2018 |
Contact name |
Martin Tolstrup |
Organization name |
Aarhus University
|
Department |
Department of Clinical Medicine
|
Street address |
Palle Juul-Jensens Boulevard 99
|
City |
Aarhus |
State/province |
DK |
ZIP/Postal code |
8200 |
Country |
Denmark |
|
|
Platform ID |
GPL17586 |
Series (1) |
GSE109792 |
Gene Expression during Panobinostat Dosing |
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