|
| Status |
Public on Nov 12, 2011 |
| Title |
colonic tissue from macrophage-specific PPARgamma-deficient mouse, biological rep3 |
| Sample type |
RNA |
| |
|
| Source name |
colon from macrophage-specific PPARg-deficient mouse
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: colon
genotype: PPAR g fl/fl; Lysozyme M cre+
phenotype: PPAR gamma deficient
treatment: dextran sodium sulfate (DSS)
|
| Treatment protocol |
Colitis was induced with 2.5% dextran sodium sulfate (DSS), 36,000–44,000 mol wt (ICN Biomedicals, Aurora, OH) in the drinking water. After the DSS challenge mice were weighed on a daily basis and examined for clinical signs of disease associated with colitis (i.e., perianal soiling, rectal bleeding, diarrhea, and piloerection). For the DSS challenge, the disease activity indices and rectal bleeding scores were calculated using a modification of a previously published compounded clinical score. Briefly, disease activity index consisted of a scoring for diarrhea and lethargy, whereas rectal bleeding consisted of a visual observation of blood in feces and the perianal area. Mice in the DSS study were euthanized on day 7 of the DSS challenge by CO2 asphyxiation and blood was withdrawn from the heart. Colons and spleens were scored based on size and macroscopic inflammatory lesions.
|
| Growth protocol |
Six- to eight-week-old PPAR gamma flfl Cre+ mice, with a Cre recombinase targeted to the LysM promoter, and control Cre- littermates (n=20) were housed at the animal facilities at Virginia Polytechnic Institute and State University in a room maintained at 75 F, with a 12:12 h light-dark cycle starting from 6:00 AM. All experimental procedures were approved by the Institutional Animal Care and Use Committee of Virginia Polytechnic Institute and State University and met or exceeded requirements of the Public Health Service/National Institutes of Health and the Animal Welfare Act.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Whole colonic tissue was collected from mice and preserved in RNAlater® (Applied Biosystems/Ambion Foster City, CA). After homogenization, total RNA was extracted and purified using the RNAeasy system according to manufacturer's instructions (Qiagen Valencia, CA). The QIAGEN RNase-free DNase supplement kit was used to ensure that the RNA was free from DNA contamination.
|
| Label |
biotin
|
| Label protocol |
According to Affymetrix standard method.
|
| |
|
| Hybridization protocol |
According to Affymetrix standard method.
|
| Scan protocol |
According to Affymetrix standard method.
|
| Description |
mut25
Gene expression data from colon of PPARr-deficient littermate mice.
|
| Data processing |
gcRMA normalized by using Bioconductor package 'gcrma' in R 2.8.
|
| |
|
| Submission date |
Aug 04, 2010 |
| Last update date |
Nov 12, 2011 |
| Contact name |
Maria Salvato |
| E-mail(s) |
MSalvato@ihv.umaryland.edu
|
| Phone |
410-706-1368
|
| Organization name |
University of Maryland School of Medicine
|
| Department |
Institute of Human Virology
|
| Lab |
Rm 510
|
| Street address |
725 W Lombard Street
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21201 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE23421 |
The immunoregulatory effect of macrophage-specific PPAR gamma deficiency on experimental inflammatory bowel disease |
|
