|
| Status |
Public on Nov 12, 2021 |
| Title |
2255_stem weedy |
| Sample type |
SRA |
| |
|
| Source name |
Stem tissue
|
| Organism |
Glycine max |
| Characteristics |
tissue: Stem tissue
developmental stage: 45 days plant
genotype: Wild type
cultivar: 2255 weedy
|
| Growth protocol |
The soybean plants were grown in field, greenhouse and growth room
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The leaves, stems, and nodes from 12-week-old plants were sampled and harvested immediately in frozen liquid nitrogen (N) for RNA isolation using Genall Ribospin. Illumina Nova SeqHigh-trhroughput platform.
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 |
Trimmomatic v0.36
Trimmomatic sliding window (4:20)
HITSAT2 v2.1.0
String Tie v1.3.4d
DESeq V1.36.0 (for DEGs analysis)
Genome_build: Glycine max Wm82.a2. v1
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample ...
|
| |
|
| Submission date |
Nov 10, 2021 |
| Last update date |
Nov 12, 2021 |
| Contact name |
Prakash Basnet |
| E-mail(s) |
[email protected]
|
| Phone |
+82-01058545943
|
| Organization name |
Kangwon National University
|
| Department |
Agriculture and Life Industries
|
| Lab |
Molecular Biology
|
| Street address |
Department of Agriculture and Life Industry, Kangwon National University, Bldg. Asangwan Rm.424, 1 K
|
| City |
Chuncheon |
| State/province |
Gangwon-do |
| ZIP/Postal code |
24341 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL28801 |
| Series (1) |
| GSE188519 |
Identification and Characterization of Key Genes Responsible for Weedy and Cultivar Growth Types in Soybean |
|
| Relations |
| BioSample |
SAMN23019676 |
| SRA |
SRX13094514 |
