|
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 |