|
| Status |
Public on Nov 25, 2019 |
| Title |
Psojae_WT_MY_input_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
mycelium
|
| Organism |
Phytophthora sojae |
| Characteristics |
strain: P6497
tissue: mycelium
chip antibody: NONE
|
| Growth protocol |
V8 medium
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
After antibody Immunoprecipitation, target DNA was eluted from Dynabeads and precipitated using ethanol followed by twice washes, finally the samples was dried and dissolved in 33 μl ddH2O
Qualified library for sequencing was prepared using the QIAquick PCR Purification Kit(Qiagen). Briefly, 10-300ng DNA was taken to do DNA-end repair(3'-dA overhang and ligation of methylated sequencing adaptors) followed by PCR amplication and size selection (usually 100-300bp, including adaptor sequencing).
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Clean reads were aligned to Psojae v1.1 and Pinfestans whole genome using bowtie2 v2.3.3.1 with parameter -N 1
Bigwig files were generated by DeepTools "bamCompare" using --normalizeUsing RPKM --scaleFactorsMethod None
Genome_build: Psojae v1.1
Supplementary_files_format_and_content: Bigwig files, scores represent enriched value(log2(fold-change))
|
| |
|
| Submission date |
Feb 26, 2019 |
| Last update date |
Nov 25, 2019 |
| Contact name |
Haidong Shu |
| E-mail(s) |
2018202004@njau.edu.cn
|
| Organization name |
Nanjing Agricultural University
|
| Department |
Department of Plant Pathology
|
| Lab |
The Lab of Pathogenomics
|
| Street address |
Weigang NO.1
|
| City |
Nanjing |
| State/province |
Jiangsu |
| ZIP/Postal code |
210095 |
| Country |
China |
| |
|
| Platform ID |
GPL25217 |
| Series (1) |
| GSE127206 |
H3K27me3 in Phytophthora sojae P6497 and its pssu(z)12 mutant at mycelium stage |
|
| Relations |
| BioSample |
SAMN11022807 |
| SRA |
SRX5431837 |
