|
| Status |
Public on Aug 01, 2013 |
| Title |
GTL1 ChIP-chip |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
ChIPed DNA from GTL1p:GTL1-GFP transgenic Arabidopsis
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
antibody: anti-GFP
|
| Treatment protocol |
N/A
|
| Growth protocol |
1/2 MS with 1% sucrose under continuous light
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Samples were prepared by ChIP using an antibody against GFP
|
| Label |
biotin
|
| Label protocol |
The samples were 3'-end-labelled with dd-UTP (Roch) by the terminal transferase (TdT, Roche) reaction for 1.5 h at 37 degrees C
|
| |
|
| Channel 2 |
| Source name |
Input DNA from GTL1p:GTL1-GFP transgenic Arabidopsis
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
antibody: none
|
| Treatment protocol |
N/A
|
| Growth protocol |
1/2 MS with 1% sucrose under continuous light
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Samples were prepared by ChIP using an antibody against GFP
|
| Label |
biotin
|
| Label protocol |
The samples were 3'-end-labelled with dd-UTP (Roch) by the terminal transferase (TdT, Roche) reaction for 1.5 h at 37 degrees C
|
| |
|
| |
| Hybridization protocol |
Whole Genome Tiling Array was hybridized for 16 hrs, washed, and stained with a streptavidin-phycoerythrin conjugate on the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol.
|
| Scan protocol |
GeneChips were scanned on Affymetrix scanner G7
|
| Description |
GTL1 ChIP from two independent ChIP experiments:
IP: GTL1_GFP_1_Grotewold_110609.CEL
IP: GTL1_GFP_2_Grotewold_110609.CEL
Input: GTL1_I_1_Grotewold_110609.CEL
Input: GTL1_I_2_Grotewold_110609.CEL
|
| Data processing |
MAT (Model-based analysis of tiling array)
|
| |
|
| Submission date |
Aug 31, 2012 |
| Last update date |
Sep 04, 2019 |
| Contact name |
Kengo Morohashi |
| E-mail(s) |
morohashi.1@osu.edu
|
| Phone |
614-688-4954
|
| Organization name |
The Ohio State University
|
| Department |
Molecular Genetics
|
| Lab |
Erich Grotewold
|
| Street address |
1060 Carmack Rd
|
| City |
Columbus |
| State/province |
OH |
| ZIP/Postal code |
43210 |
| Country |
USA |
| |
|
| Platform ID |
GPL10977 |
| Series (2) |
| GSE40519 |
Genome-wide GTL1 binding sites in Arabidopsis thaliana |
| GSE40520 |
GTL1 regulates ploidy-dependent cell growth through direct transcriptional repression of APC/CCS52A1 in Arabidopsis |
|
| Relations |
| Reanalyzed by |
GSE136843 |
