|
| Status |
Public on Jun 10, 2018 |
| Title |
Kidney_WT_rep5 |
| Sample type |
RNA |
| |
|
| Source name |
Kidney
|
| Organism |
Mus musculus |
| Characteristics |
tissue: whole Kidney
replicate: replicate 5
age: 5 weeks
strain: C57Bl/6N
condition: wildtype
|
| Growth protocol |
Mice were housed in a specific pathogen-free facility, fed ad libitum and housed at constant ambient temperature in a 12-hour day/night cycle. Breeding and genotyping were done according to standard procedures. Lkb1flox/flox mice (mixed genetic background) were purchased from The Jackson Laboratories (STOCK Stk11tm1.1Sjm/J, stock number: 014143) and were crossed to KspCre mice (B6.Cg-Tg(Cdh16-cre)91lgr/J; C57Bl/6N background)1 to generate a tubule-specific Lkb1 knockout (further referred to as Lkb1Δtub). Lkb1flox/+ and Lkb1flox/flox littermates that do not bear KspCre transgene were used as controls.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were extracted and purified from 5-week old control and Lkb1Δtub kidneys (5 mice per genotype), using RNeasy Mini Kit (Qiagen) according to the manufacturer’s protocol.
|
| Label |
Biotin
|
| Label protocol |
Sense target cDNA was prepared from 500 ng total RNA using the Ambion WT Expression kit; the cDNAs were fragmented and labeled with the Affymetrix Terminal labeling and Controls kit according to the manufacturers protocol.
|
| |
|
| Hybridization protocol |
cDNAs were generated and hybridized on GeneChip® Mouse Transcriptome Assay 1.0 (Affymetrix) according to the Affymetrix protocol.
|
| Scan protocol |
Arrays were washed and stained with GeneChip Fluidics Station 450 and scanned with GeneChip Scanner 3000 7G using AGCC.
|
| Data processing |
Raw data from CEL files were RMA normalized and summariezd to transcript clusters using the R Bioconductor package olifa
MTA-1_0.na36.mm10.transcript.csv
|
| |
|
| Submission date |
Aug 24, 2016 |
| Last update date |
Jun 10, 2018 |
| Contact name |
Hauke Busch |
| E-mail(s) |
[email protected]
|
| Phone |
+49-451-3101-8470
|
| Organization name |
University of Lübeck
|
| Department |
Lübeck Institute of Experimental Dermatology
|
| Street address |
Ratzeburger Allee 160
|
| City |
Lübeck |
| State/province |
Schleswig-Holstein |
| ZIP/Postal code |
23538 |
| Country |
Germany |
| |
|
| Platform ID |
GPL20775 |
| Series (2) |
| GSE86009 |
Lkb1 interacts with a ciliopathy complex to regulate inflammation (array) |
| GSE86011 |
Lkb1 interacts with a ciliopathy complex to regulate inflammation |
|
