|
| Status |
Public on Feb 19, 2009 |
| Title |
NtlChIP_gastrula_rep2 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Immunoprecipitated chromatin
|
| Organism |
Danio rerio |
| Characteristics |
gastrula embryo
|
| Treatment protocol |
Embryos at 75%-85% epiboly were collected and used in a ChIP assay to generate the Cy5 (ChIPed DNA) and Cy3 (whole cell input DNA) labelled probes for hybridisation to the gene arrays.
|
| Growth protocol |
embryos grown to 75-85% epiboly
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin immunoprecipitation assay
|
| Label |
Cy5
|
| Label protocol |
Protocol as described in Wardle et al 2006 (Genome Biology 7:R71).
|
| |
|
| Channel 2 |
| Source name |
Whole cell chromatin
|
| Organism |
Danio rerio |
| Characteristics |
gastrula embryo
|
| Treatment protocol |
Embryos at 75%-85% epiboly were collected and used in a ChIP assay to generate the Cy5 (ChIPed DNA) and Cy3 (whole cell input DNA) labelled probes for hybridisation to the gene arrays.
|
| Growth protocol |
embryos grown to 75-85% epiboly
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin immunoprecipitation assay
|
| Label |
Cy3
|
| Label protocol |
Protocol as described in Wardle et al 2006 (Genome Biology 7:R71).
|
| |
|
| |
| Hybridization protocol |
Protocol as described in Wardle et al 2006 (Genome Biology 7:R71).
|
| Scan protocol |
Slides were scanned using an Agilent scanner
|
| Description |
Ntl_gastrula_slide9_rep2
|
| Data processing |
Images were quantified using Genepix.
Data was analysed using Whitehead error model as described in Wardle et al 2006 (Genome Biology 7:R71).
|
| |
|
| Submission date |
Aug 04, 2008 |
| Last update date |
Feb 19, 2009 |
| Contact name |
Fiona Wardle |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Cambridge
|
| Department |
Physiology, Development and Neuroscience
|
| Street address |
Downing Street
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 3DY |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL7133 |
| Series (1) |
| GSE12331 |
A mesodermal gene regulatory network directed by zebrafish No tail |
|
