|
| Status |
Public on Jun 01, 2020 |
| Title |
Mock_Cut_3_1 |
| Sample type |
SRA |
| |
|
| Source name |
Cut apical root meristems
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
treatment: mock 3h after cut
|
| Treatment protocol |
For L-Kyn treatments, 7 days old seedlings were
|
| Growth protocol |
Seedslings were germinated on 1/2MS agar plates containing 0.5% sucrose. Following 2 days at 4c, plates were move to a 22c for 16h light/8h dark cycle for 7 days
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Root tips were flash frozen, grinded and RNA extracted using RNeasy micro-kit (Qiagen) according to the manufacturer instructions
sequencing libraries prepared using Lexigen 3’ Quant-Seq kit, according to the manufacturer instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Matosevich_etal.csv
|
| Data processing |
Reads were aligned to the genome using Bowtie2, followed by readcount using htseq-count
Expression data were normalized using Deseq2
Genome_build: Arabidopsis thaliana TAIR10
Supplementary_files_format_and_content: Normalized expression reads for all replicates
|
| |
|
| Submission date |
Feb 18, 2020 |
| Last update date |
Jun 01, 2020 |
| Contact name |
Idan Efroni |
| E-mail(s) |
idan.efroni@mail.huji.ac.il
|
| Organization name |
Hebrew University
|
| Department |
Plant Sciences
|
| Street address |
POB 12
|
| City |
Rehovot |
| ZIP/Postal code |
76100 |
| Country |
Israel |
| |
|
| Platform ID |
GPL19580 |
| Series (1) |
| GSE145488 |
A dynamic pattern of local auxin sources is required for root regeneration |
|
| Relations |
| BioSample |
SAMN14127715 |
| SRA |
SRX7740852 |
