|
| Status |
Public on Aug 04, 2014 |
| Title |
Sample_GF1_RNA-seq |
| Sample type |
SRA |
| |
|
| Source name |
Arabidopsis thaliana seedlings
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
developmental stage: 4 day old seedling
genotype: 35S: GFP-FHY1, fhy1-1
|
| Growth protocol |
The 35S: GFP-FHY1 fhy1-1 transgenic line and the fhy1-1 mutant were grown under the same light conditions used (D4d+FR3h) for RNA preparation and sequencing. Three biologically replicates were subjected to high-throughput Solexa (Illumina) sequencing.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNAeasy Kit
standard Illumina mRNA-seq protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Bowtie for alignment, v1, default parameter
Cufflink for expression profiling, v2.1.0, default parameter
Genome_build: TAIR10
Supplementary_files_format_and_content: text file with different expressed genes discovered by Cufflink software package, table head : test_id gene_id gene locus sample_1 sample_2 status value_1 value_2 log2(fold_change) test_stat p_value q_value significant
|
| |
|
| Submission date |
May 29, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Bosheng Li |
| E-mail(s) |
libs@sustc.edu.cn
|
| Organization name |
SUSTC (current, may different with previous institution )
|
| Department |
MCDB
|
| Street address |
SUStech Huiyuan #1 406
|
| City |
Shenzhen |
| State/province |
Guangdong |
| ZIP/Postal code |
581055 |
| Country |
China |
| |
|
| Platform ID |
GPL13222 |
| Series (2) |
| GSE58082 |
The photoreceptor chaperone FHY1 has an independent role in gene modulation and plant development under far-red light [RNA-Seq] |
| GSE58084 |
The photoreceptor chaperone FHY1 has an independent role in gene modulation and plant development under far-red light |
|
| Relations |
| BioSample |
SAMN02803813 |
| SRA |
SRX555082 |
