|
| Status |
Public on Apr 04, 2006 |
| Title |
Ad infected murine liver-MO30k-(6415)-6 hpi |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Cy5 labeled Liver RNA
|
| Organism |
Mus musculus |
| Characteristics |
MyD88 Homozygous murine Liver RNA- 6 hours post-injection with a 1st generation (E1-E3-CMVLacZ) vector.
|
| Biomaterial provider |
Amalfitano Lab
|
| Treatment protocol |
The RNA (10 µg) was a total RNA mix that was assessed for quality with an Agilent Lab-on-a-Chip 2100 Bioanalyzer (Agilent Technologies, Palo Alto, USA).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolation was accomplished by homogenizing liver in liquid nitrogen, then extracting RNA using TriReagent (Molecular Research Center, Inc.). The RNA (10 µg) was purified using an RNeasy Kit (Qiagen) and assessed for quality with an Agilent Lab-on-a-Chip 2100 Bioanalyzer (Agilent Technologies, Palo Alto, USA).
|
| Label |
Cy5-Raw
|
| Label protocol |
The RNA from murine liver was directly labeled with Cy dyes using oligo dT primers, for complete details see http://mgm.duke.edu/genome/dna_micro/core/protocols/ for detailed labeling and hybridization protocols.
|
| |
|
| Channel 2 |
| Source name |
Murine Reference RNA
|
| Organism |
Mus musculus |
| Characteristics |
Murine Universal RNA (Stratagene, La Jolla, CA) which is a mixture of RNA from 10 control cell lines approximating the expression profile of the majority of murine genes was used.
|
| Treatment protocol |
The RNA (10 µg) was a total RNA mix that was assessed for quality with an Agilent Lab-on-a-Chip 2100 Bioanalyzer (Agilent Technologies, Palo Alto, USA).
|
| Extracted molecule |
total RNA |
| Label |
Cy3-Control
|
| Label protocol |
The RNA was directly labeled with Cy dyes using oligo dT primers, for complete details see http://mgm.duke.edu/genome/dna_micro/core/protocols/ for detailed labeling and hybridization protocols.
|
| |
|
| |
| Hybridization protocol |
Hybridization of a Cy labeled cDNA probe (mix of Cy3 and Cy5) onto coated slide spotted with oligonucleotides (70mers) was performed as described in detail at http://mgm.duke.edu/genome/dna_micro/core/protocols/SOP_hyb.doc.
|
| Scan protocol |
Fluorescent array images were collected for both Cy3 and Cy5 with a Axon GenePix Pro 4000A scanner and image intensity data were extracted and analyzed with Microarray Analysis Suite (MAS) 5.0 software.
|
| Description |
Sample is MyD88 Homozygous murine liver RNA extract after infected with 1st generation LacZ adenovirus (1.5x10E11 particles per mouse) at 6 hpi.
|
| Data processing |
VALUE column is the log2 ratio of normalized Cy5:Cy3 signal after Intensity-Dependent normalization.
|
| |
|
| Submission date |
Dec 11, 2005 |
| Last update date |
Mar 06, 2006 |
| Contact name |
Zachary Conrad Hartman |
| E-mail(s) |
zch@duke.edu
|
| Phone |
919-684-9197
|
| Organization name |
Duke University
|
| Department |
Surgery
|
| Lab |
Lyerly Lab
|
| Street address |
Research Drive MSRB rm 414
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27710 |
| Country |
USA |
| |
|
| Platform ID |
GPL3222 |
| Series (1) |
| GSE4339 |
The in vivo cellular response to adenovirus and its regulation through MyD88 |
|
