|
| Status |
Public on Dec 17, 2008 |
| Title |
CD11c+CD103+ versus CD11c+CD103- dendritic cells_replicate2_M2067 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
gProcessedSignal values originated from CD11c+CD103- dendritic cells
|
| Organism |
Mus musculus |
| Characteristics |
Bone marrow cells from CX3CR1+/gfp C57BL/6 mice were sorted as follows: lineage negative (CD3, CD19, NK1.1, Ter119, Ly6G and CD11c) CX3CR1+c-kit+. Sorted cells were further cultured in vitro under the continuous presence of GM-CSF. lin-CX3CR1+c-kit+ bone marrow cells gave rise to CD103- DC in vitro.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA is extracted with the RNeasy mini kit from QIAGEN as directed by the manufacturer.
|
| Label |
Cy3
|
| Label protocol |
cRNA-synthesis was performed with the “Low RNA Input Linear Amplification Kit PLUS, Two-Color” (#5188-5340, Agilent Technologies) as directed by the manufacturer.
|
| |
|
| Channel 2 |
| Source name |
rProcessedSignal values originated from CD11c+CD103+ dendritic cells
|
| Organism |
Mus musculus |
| Characteristics |
Bone marrow cells from CX3CR1+/gfp C57BL/6 mice were sorted as follows: lineage negative (CD3, CD19, NK1.1, Ter119, Ly6G and CD11c) CX3CR1+c-kit+. Sorted cells were further cultured in vitro under the continuous presence of GM-CSF. lin-CX3CR1+c-kit+ bone marrow cells gave rise to CD103- DC in vitro.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA is extracted with the RNeasy mini kit from QIAGEN as directed by the manufacturer.
|
| Label |
Cy5
|
| Label protocol |
cRNA-synthesis was performed with the “Low RNA Input Linear Amplification Kit PLUS, Two-Color” (#5188-5340, Agilent Technologies) as directed by the manufacturer.
|
| |
|
| |
| Hybridization protocol |
cRNA fragmentation, hybridization and washing steps were performed exactly as recommended by the manufacturer “Two-Color Microarray-Based Gene Expression Analysis Protocol V5.0.1” (see http://www.agilent.com for details).
|
| Scan protocol |
Slides were scanned on the Agilent Micro Array Scanner G2505 B at two different PMT settings, namely 100% and 5%, to increase the dynamic range of the measurements.
|
| Description |
Log ratio values were calculated by dividing rProcessedSignal values by gProcessedSignal values, thus positive log ratio values indicate enhanced mRNA expression levels within the CD11c+CD103+ dendritic cell population.
|
| Data processing |
Data extraction and normalization were performed with the “Feature Extraction Software V9.1.3.1” by using the recommended default extraction protocol file: GE2-v5_91_0806.xml.
|
| |
|
| Submission date |
Mar 18, 2008 |
| Last update date |
Dec 17, 2008 |
| Contact name |
Oliver Dittrich-Breiholz |
| E-mail(s) |
dittrich.oliver@mh-hannover.de
|
| Organization name |
Medical School Hannover
|
| Department |
Research Core Unit Genomics
|
| Street address |
Carl-Neuberg-Str. 1
|
| City |
Hannover |
| ZIP/Postal code |
30625 |
| Country |
Germany |
| |
|
| Platform ID |
GPL4134 |
| Series (1) |
| GSE10882 |
Transcription profile of CD103- vs CD103+ dendritic cells derived from CX3CR1+c-kit+- bone marrow cells (M1993 M2067) |
|
