|
| Status |
Public on Apr 02, 2021 |
| Title |
J rep1 |
| Sample type |
SRA |
| |
|
| Source name |
soybean
|
| Organism |
Glycine max |
| Characteristics |
genotype: Wild type (JACK)
tissue: seed
Stage: H3
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol reagent method (Invitrogen)
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
RNA-sequencing was performed using an Illumina instrument of NovaSeq 6000
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Glycine max whole genome using Hisat2
Reads counting was performed using featureCounts software.
Differential expressed genes were analyzed using DESeq2 software.
Genome_build: Gmax_508_Wm82.a4.v1.gene.gtf
Supplementary_files_format_and_content: counts.txt
|
| |
|
| Submission date |
Apr 01, 2021 |
| Last update date |
Apr 02, 2021 |
| Contact name |
Wei Wei |
| Organization name |
Institute of Genetics and Developmental Biology, Chinese Academy of Sciences
|
| Department |
State Key Lab of Plant Genomics
|
| Street address |
Chaoyang District, Beichen West Road, Campus #1, No.2
|
| City |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
| |
|
| Platform ID |
GPL28801 |
| Series (1) |
| GSE171304 |
Next Generation Sequencing Quantitative Analysis of soybean seeds Transcriptomes |
|
| Relations |
| BioSample |
SAMN18588788 |
| SRA |
SRX10498529 |
