|
| Status |
Public on Sep 20, 2019 |
| Title |
444_ CPT tube Replicate 1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Agilent's Universal Human Reference RNA composed of pooled total RNA from ten cell lines representing different human tissues
|
| Organism |
Homo sapiens |
| Characteristics |
reference: Agilent's Universal Human Reference RNA composed of pooled total RNA from ten cell lines representing different human tissues
|
| Growth protocol |
growth protocol is not applicable
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Blood was collected and preserved in PAXgene™ RNA tubes, RNAgard® Blood Tubes and CPT tubes from eight healthy volunteers. In parallel, PBMCs were isolated from the CPT tubes following the manufacturer’s instructions.
Total RNA was extracted using PAXgene™ RNA blood miRNA kit (Qiagen, Hilden, Germany) from blood preserved in PAXgene™ RNA tubes and RNAgard® Blood Tubes following manufacturer's instructions. RNA from PBMC in Trizol (from CPT tubes) was extracted following manufacturer's instructions
|
| Label |
Cy3
|
| Label protocol |
Total RNA (200ng) was used as starting material, which was amplified using the Low Input Quick Amp Two-Color Kit (Agilent Technologies).The labelled cRNA was purified using an RNeasy Mini Kit (Qiagen, Hilden, Germany), and eluted, labelled cRNA was quantified using a NanoDrop ND-2000 spectrophotometer (Thermo Fisher Scientific Inc, Waltham, MA, USA).
|
| |
|
| Channel 2 |
| Source name |
Whole blood
|
| Organism |
Homo sapiens |
| Characteristics |
test: RNA extracted from PBMCs isolated from whole blood preserved in CPT tubes.
|
| Growth protocol |
growth protocol is not applicable
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Blood was collected and preserved in PAXgene™ RNA tubes, RNAgard® Blood Tubes and CPT tubes from eight healthy volunteers. In parallel, PBMCs were isolated from the CPT tubes following the manufacturer’s instructions.
Total RNA was extracted using PAXgene™ RNA blood miRNA kit (Qiagen, Hilden, Germany) from blood preserved in PAXgene™ RNA tubes and RNAgard® Blood Tubes following manufacturer's instructions. RNA from PBMC in Trizol (from CPT tubes) was extracted following manufacturer's instructions
|
| Label |
Cy5
|
| Label protocol |
Total RNA (200ng) was used as starting material, which was amplified using the Low Input Quick Amp Two-Color Kit (Agilent Technologies).The labelled cRNA was purified using an RNeasy Mini Kit (Qiagen, Hilden, Germany), and eluted, labelled cRNA was quantified using a NanoDrop ND-2000 spectrophotometer (Thermo Fisher Scientific Inc, Waltham, MA, USA).
|
| |
|
| |
| Hybridization protocol |
cRNA was hybridized to SurePrint G3 Human GE v2 8x60K microarrays (Agilent Technologies) following manufacturer's instructions
|
| Scan protocol |
Slides were scanned on a Agilent Technologies Scanner G2600D Images were quantified using Agilent Feature Extraction Software
|
| Description |
Biological replicate 1 of 3. RNA extracted from PBMCs isolated from whole blood preserved in CPT tubes.
|
| Data processing |
Agilent Feature Extraction Software (v 11.5.1.1) was used for background subtraction and R script v3.3 software was used to conduct the preliminary data filtration and statistical analysis.
|
| |
|
| Submission date |
Sep 15, 2017 |
| Last update date |
Sep 20, 2019 |
| Contact name |
Aarti Gautam |
| E-mail(s) |
[email protected]
|
| Phone |
301-619-7683
|
| Organization name |
WRAIR
|
| Department |
Medical Readiness Systems Biology
|
| Street address |
503 Robert Grant Avenue
|
| City |
Silver Spring |
| State/province |
MD |
| ZIP/Postal code |
20910 |
| Country |
USA |
| |
|
| Platform ID |
GPL17077 |
| Series (1) |
| GSE103889 |
Gene Expression Profiling of Whole Blood: A Comparative Assessment of RNA-Stabilizing Collection Methods |
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