|
Status |
Public on Nov 01, 2011 |
Title |
Sox3 ChIP-Seq in Sox3-transfected C2C12 cells |
Sample type |
SRA |
|
|
Source name |
C2C12 muscle progenitor cells
|
Organism |
Mus musculus |
Characteristics |
cell type: Sox3-transfected C2C12 cells differentiation specificity: None chip antibody: Sox3 (T. Edlund)
|
Treatment protocol |
Formaldehyde 1% crosslink 9min at 37°C. Cells were mechanically dissociated from the surface before lysis.
|
Growth protocol |
Mouse ES-cells were differentiated with B27 and N2 supplement (GIBCO) as monolayers on gelatinized cellbinding surface (Corning) with 0.5uM retinoic acid (all-trans, Sigma) at day 0 and day 2. C2C12 cells were cultured with serum unless for 3h during lipofectamine transfection.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Prep Kit (1003473).
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
Chromatin IP against Sox3
|
Data processing |
Reads were aligned by Bowtie, with options -n 2 -m 1, against genome build mm9.
|
|
|
Submission date |
Oct 18, 2011 |
Last update date |
May 15, 2019 |
Contact name |
Rickard Sandberg |
E-mail(s) |
Rickard.Sandberg@ki.se
|
Organization name |
Karolinska Institutet
|
Department |
Department of Cell and Molecular Biology
|
Street address |
Berzelius vag 35
|
City |
Stockholm |
ZIP/Postal code |
17177 |
Country |
Sweden |
|
|
Platform ID |
GPL13112 |
Series (2) |
GSE33024 |
Sequentially acting Sox transcription factors in neural lineage development |
GSE33059 |
Sequentially acting Sox transcription factors in neural lineage development [ChIP-seq] |
|
Relations |
SRA |
SRX101698 |
BioSample |
SAMN00740001 |