|
| Status |
Public on Jul 26, 2011 |
| Title |
Chd4 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Chd4 ChIP DNA from P15 rat sciatic nerve
|
| Organism |
Rattus norvegicus |
| Characteristics |
tissue: P15 Sciatic Nerve
strain: Sprague-Dawley
antibody: Chd4, Paul Wade, (Fujita et al., 2003)
sample type: WGA-amplified ChIP DNA
|
| Growth protocol |
P15
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP assays were performed on pooled P15 rat sciatic nerve samples. 6-10 pairs of sciatic nerve tissue was cross linked 1% formaldehyde in PBS for 20min as described (Jang et al., J. Neurochemistry, 2006; Jang and Svaren, JBC 2009).
|
| 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 |
Input ChIP DNA from P15 rat sciatic nerve
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague-Dawley
tissue: P15 Sciatic Nerve
antibody: none
sample type: WGA-amplified ChIP DNA
|
| Growth protocol |
P15
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP assays were performed on pooled P15 rat sciatic nerve samples. 6-10 pairs of sciatic nerve tissue was cross linked 1% formaldehyde in PBS for 20min as described (Jang et al., J. Neurochemistry, 2006; Jang and Svaren, JBC 2009).
|
| 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 25, 2011 |
| Last update date |
Jul 26, 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) |
| GSE30890 |
P15 Rat Sciatic Nerve ChIP-Chip with NuRD complex components |
|
