|
| Status |
Public on Sep 29, 2018 |
| Title |
Pinfestans_WT_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
mycelium
|
| Organism |
Phytophthora infestans |
| Characteristics |
genotype: wild type
strain: T30-4
tissue: mycelium
age: 6-day
|
| Growth protocol |
V8 medium
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA were extracted using OMEGA total RNA Kit I (Cat.#:R6834-04)
Library followed the standard Illumina protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Clean reads were aligned to Psojae v1.1 and Pinfestans whole genome using hisat2 v2.1.0 with default parameters
FPKM were calculated using stringtie v1.3.3b with default parameters
Genome_build: Psojae v1.1 and ASM14294v1
Supplementary_files_format_and_content: gtf files include FPKM,TPM,and coverage values for each Sample …
|
| |
|
| Submission date |
Jun 20, 2018 |
| Last update date |
Sep 30, 2018 |
| 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 |
GPL25218 |
| Series (1) |
| GSE116090 |
Transcriptomes of two phytophthora species at mycelium stage |
|
| Relations |
| BioSample |
SAMN09462926 |
| SRA |
SRX4277324 |
