|
| Status |
Public on Mar 01, 2016 |
| Title |
EWS-FLI1-HA-ChipSeq |
| Sample type |
SRA |
| |
|
| Source name |
SCOS#2 Dox ON 72h_ChIP
|
| Organism |
Mus musculus |
| Characteristics |
cell line: SCOS#2
|
| Treatment protocol |
SCOS#2 Dox ON samples were treated with Dox (2µg/ml) containing medium for 72hours.
|
| Growth protocol |
DMEM+10%FBS+PS (SCOS#2 and #12)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. We used anti HA antibody(Monoclonal Mouse IgG 1-κ):Nacalai cat# 06340-54 Lot#M4H0340.
Libraries were prepared according to illumina'sTrueseq ChIP sample prep kit set A(Part#IP-202-1012)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Basecalls was performed using BaseSpace.
Sequenced data was trimmed for adaptor sequence by Cutadapt softweare to remove adapter sequences with parameter -q 20 -m 20 .
Chip-seq reads were aligned to the mm9 genome assembly using Bowtie2 version 2.2.0 -p 4 -q .
Genome_build: mm9
Supplementary_files_format_and_content: MACS called peaks
|
| |
|
| Submission date |
Sep 10, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Yasuhiro Yamada |
| E-mail(s) |
yyamada@m.u-tokyo.ac.jp
|
| Organization name |
University of Tokyo
|
| Department |
Department of Molecular Pathology
|
| Street address |
7-3-1 Hongo, Bunkyo-ku
|
| City |
Tokyo |
| ZIP/Postal code |
113-0033 |
| Country |
Japan |
| |
|
| Platform ID |
GPL16417 |
| Series (2) |
| GSE72897 |
EWS-FLI1-induced osteosarcoma model unveiled a crucial role of impaired osteogenic differentiation on osteosarcoma development [ChIP-seq] |
| GSE72898 |
EWS-FLI1-induced osteosarcoma model unveiled a crucial role of impaired osteogenic differentiation on osteosarcoma development |
|
| Relations |
| BioSample |
SAMN04045428 |
| SRA |
SRX1219688 |
