|
| Status |
Public on Jun 17, 2014 |
| Title |
IgG NSC 6h |
| Sample type |
SRA |
| |
|
| Source name |
rat NSC cells
|
| Organism |
Rattus norvegicus |
| Characteristics |
cell type: Cortex derived Neural stem cells
pasage: Passage 2
chip antibody: IgG
treatment: FGF
time: 6 h
|
| Treatment protocol |
ChIP seq was performed as described in methods. Full study is published as Castello-Branco et al (2014) Stem Cell reports
|
| Growth protocol |
Neural Stem cells from disected cortex of E15,5 rat embryos were grown in the presense of FGF for 6h and 24h before fixation with formaldehyde
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Sonicated nuclear extracts were incubated with antibodies
Libraries were prepared according to Illumina's instructions accompanying the ChIP-Seq DNA Sample Prep Kit (IP-102-1001).
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Reads were mapped to the rat genome build rn4 by Bowtie
peaks were generated using Cis Genome with input control as background.
Genome_build: rn4
Supplementary_files_format_and_content: BED
|
| |
|
| Submission date |
May 01, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Ola Hermanson |
| E-mail(s) |
ola.hermanson@ki.se
|
| Organization name |
Karolinska Institutet
|
| Department |
Neuroscience
|
| Lab |
Hermanson
|
| Street address |
Retzius Väg 8
|
| City |
Stockholm |
| ZIP/Postal code |
17177 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL14844 |
| Series (1) |
| GSE57232 |
ChIP-seq experiment analyzing binding of HDAC2 and HDAC3 to genomic loci in rat Neural Stem Cells |
|
| Relations |
| BioSample |
SAMN02741880 |
| SRA |
SRX530449 |
