|
Status |
Public on Jan 01, 2023 |
Title |
mASPS_2_ASPSCR1 |
Sample type |
SRA |
|
|
Source name |
mouse tumor
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 genotype: ASPSCR1-TFE3 mouse model chip antibody: ASPSCR1 tissue: mouse tumor
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Nuclei isolated from snap frozen samples. Lysates were clarified from sonicated nuclei and TARGET DNA complexes were isolated with antibody. Library was prepared using NEBnext ChIP-seq libraray prep reagent set
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina MiSeq |
|
|
Data processing |
single-end 50bp sequencing on an Illumina MiSeq platform ChIP-seq reads were aligned to the mm10 genome assembly using BWA-MEM (version 0.7.10-r789) peaks were called using MACS2 with following settings: -B --SPMR --pvalue=1e-2 --mfold 15 100 Genome_build: mm10 Supplementary_files_format_and_content: bigwig files were generated using MACS2; Scores represent a normalized pileup signal
|
|
|
Submission date |
Dec 01, 2020 |
Last update date |
Jan 01, 2023 |
Contact name |
Jinxiu Li |
Organization name |
China Agricutural University
|
Department |
College of biological sciences
|
Lab |
State key laboratories of Agrobiotechnology
|
Street address |
Yuanmingyuan west road 2#
|
City |
Beijing |
State/province |
Beijing |
ZIP/Postal code |
100193 |
Country |
China |
|
|
Platform ID |
GPL16417 |
Series (2) |
GSE162476 |
ASPSCR1-TFE3 reprograms transcription by organizing enhancers around hexameric VCP [mASPS_ChIP, ASPL_VCP_Pol2] |
GSE162609 |
ASPSCR1-TFE3 reprograms transcription by organizing enhancers around hexameric VCP |
|
Relations |
BioSample |
SAMN16974628 |
SRA |
SRX9616470 |