|
| Status |
Public on Jul 20, 2017 |
| Title |
Depodding_Control5.1 |
| Sample type |
SRA |
| |
|
| Source name |
Line Williams 82_Depodding_Control5
|
| Organism |
Glycine max |
| Characteristics |
line: Line Williams 82
time point: 76 days after planting
tissue: Leaf
sample group: Control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from trifoliate leaves using Phenol-cholorform method.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Aligned to Gmax275 primary transcriptome using Bowtie2
removed reads that aligned multiple transcripts
removed genes with <10 hits per stage/experiment
Normalization using DESeq2.0
Genome_build: Glycine max 275
Supplementary_files_format_and_content: .csv files with RPKM values for each sample
|
| |
|
| Submission date |
Aug 16, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Karen A Hudson |
| E-mail(s) |
karen.hudson@ars.usda.gov
|
| Organization name |
USDA-ARS
|
| Department |
Crop Production and Pest Control
|
| Street address |
915 West State Street
|
| City |
West Lafayette |
| State/province |
IN |
| ZIP/Postal code |
47907 |
| Country |
USA |
| |
|
| Platform ID |
GPL19246 |
| Series (1) |
| GSE85714 |
Molecular Analysis of Sink Limited Soybeans |
|
| Relations |
| BioSample |
SAMN05580220 |
| SRA |
SRX2027257 |
