|
| Status |
Public on Jul 23, 2011 |
| Title |
Egr1 C |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Egr1 ChIP DNA from H4IIE cells treated with insulin for 1h
|
| Organism |
Rattus norvegicus |
| Characteristics |
tissue: H4IIE liver cells
antibody: Egr1, Santa Cruz, sc-189
sample type: WGA-amplified ChIP DNA
treatment: treated with insulin for 1h
|
| Treatment protocol |
1h insulin
|
| Growth protocol |
H4IIE cells in Growth Medium
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP assays were performed on H4IIE rat liver cell lines grown in standard growth media and passaged twice weekly. Cells were treated with 0.1uM insulin for 1h or untreated and cross linked 1% formaldehyde in PBS for 20min as described (Jang et al., J. Neurochemistry, 2006; Jang and Svaren, JBC 2009, Gokey et al., JBC, 201).
|
| Label |
Cy5
|
| Label protocol |
ChIP DNA was amplified by whole genome amplification (Sigma), and then sent to Nimblegen for labeling with Cy3 or Cy5 per manufacturer's protocol (http://www.nimblegen.com/products/lit/lit.html).
|
| |
|
| Channel 2 |
| Source name |
Egr1 ChIP DNA from H4IIE cells untreated
|
| Organism |
Rattus norvegicus |
| Characteristics |
tissue: H4IIE liver cells
antibody: Egr1, Santa Cruz, sc-189
sample type: WGA-amplified ChIP DNA
treatment: none
|
| Treatment protocol |
untreated
|
| Growth protocol |
H4IIE cells in Growth Medium
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP assays were performed on H4IIE rat liver cell lines grown in standard growth media and passaged twice weekly. Cells were treated with 0.1uM insulin for 1h or untreated and cross linked 1% formaldehyde in PBS for 20min as described (Jang et al., J. Neurochemistry, 2006; Jang and Svaren, JBC 2009, Gokey et al., JBC, 201).
|
| Label |
Cy3
|
| Label protocol |
ChIP DNA was amplified by whole genome amplification (Sigma), and then sent to Nimblegen for labeling with Cy3 or Cy5 per manufacturer's protocol (http://www.nimblegen.com/products/lit/lit.html).
|
| |
|
| |
| Hybridization protocol |
Hybridization was performed by Nimblegen
|
| Scan protocol |
Arrays were scanned by Nimblegen
|
| Description |
custom array design 081105
|
| Data processing |
Arrays were processed using Nimblegen's standard protocol for Nimblescan 2.4 ChIP data extraction.
|
| |
|
| Submission date |
Jul 20, 2011 |
| Last update date |
Jul 23, 2011 |
| Contact name |
John Svaren |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Wisconsin
|
| Department |
Comparative Biosciences
|
| Lab |
Waisman Center
|
| Street address |
1500 Highland Ave.
|
| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53705 |
| Country |
USA |
| |
|
| Platform ID |
GPL10812 |
| Series (1) |
| GSE30823 |
H4IIE liver cell line ChIP-Chip with Egr1 |
|
