|
| Status |
Public on Jan 13, 2012 |
| Title |
E13.5_wildtpye_Pax9_Epi2 |
| Sample type |
RNA |
| |
|
| Source name |
Mouse LCM, E13.5_Epi
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Dental Epithelium
tooth: First lower molar
developmetal stage: E13.5
strain: C57BL6
strain source: Harvard Medical School
hybridizing molecule: cDNA
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Picopure RNA Isolation Kit, Molecular Devices, LCM generated profiles. Rneasy Qiagen RNA extraction for the hand dissected profiles separated by Dispase.
|
| Label |
Biotin-Labeled cDNA
|
| Label protocol |
NuGEN Illumina Bead Array Application Note: Uracil Glycolsylase treated, and Hydrazine biotinylated according to manufacturers instructions. Standard Illumina total RNA labeling protocol.
|
| |
|
| Hybridization protocol |
Illumina protocol for the cRNA samples and NuGEN's modified Illumina hybridization protocol for the LCM generated cDNA samples.
|
| Scan protocol |
Illumina protocol
|
| Description |
Dental Epithelium isolated from the mandible using LCM
|
| Data processing |
lumi R package using the log2 transformation and robust spline normalization. Furthermore, we used R package comBat to remove batch effect that were introduced due to using microarray data generated by cRNA and cDNA
|
| |
|
| Submission date |
Sep 22, 2011 |
| Last update date |
Jan 13, 2012 |
| Contact name |
Joshua WK Ho |
| E-mail(s) |
jwho@rics.bwh.harvard.edu
|
| Organization name |
Brigham and Women's Hospital
|
| Department |
Department of Medicine
|
| Lab |
Division of Genetics
|
| Street address |
41 Avenue Louis Pasteur
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL6887 |
| Series (1) |
| GSE32321 |
A Wnt-Bmp feedback circuit controls inter-tissue signaling dynamics in tooth organogenesis |
|
