|
| Status |
Public on Nov 17, 2011 |
| Title |
shield_ChIPSeq_H3K4me3 |
| Sample type |
SRA |
| |
|
| Source name |
shield_ChIPSeq_H3K4me3
|
| Organism |
Danio rerio |
| Characteristics |
developmental stage: embryo
embryogenesis stage: shield
chip antibody: Anti-trimethyl-Histone H3 (Lys4)
chip antibody vendor: Millipore
chip antibody catalog number: #07-473
|
| Growth protocol |
Zebrafish embryos were dechorionated at the 1-cell stage, followed by incubation at 28C until they reach the shield stage (about 6 hours post fertilization)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP was performed as previously described (Vastenhouw et al. 2010), using the following antibodies: H3K4me3 (millipore #07-473) and H3K27me3 (millipore #07-449). Sequencing libraries were prepared according to standard Illumina protocols.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
ChIP-Seq
|
| Data processing |
Reads were mapped to the Zv9 genome assembly using bowtie
|
| |
|
| Submission date |
Nov 11, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Eivind Valen |
| E-mail(s) |
eivind.valen@gmail.com
|
| Organization name |
University of Copenhagen
|
| Department |
Dep. of Biology
|
| Lab |
Sandelin
|
| Street address |
Ole Maaloes Vej 4
|
| City |
Copenhagen E |
| State/province |
Select |
| ZIP/Postal code |
2100 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL14875 |
| Series (2) |
| GSE32899 |
Comprehensive identification of long non-coding RNAs expressed during zebrafish embryogenesis [ChIP_Seq] |
| GSE32900 |
Comprehensive identification of long non-coding RNAs expressed during zebrafish embryogenesis |
|
| Relations |
| SRA |
SRX107376 |
| BioSample |
SAMN00760465 |
