|
| Status |
Public on Sep 24, 2011 |
| Title |
2-week-old Arabidopsis seedlings (Columbia ecotype) |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Comparison of TopHat alignments and assessment of spurious splice junctions for 32nt and 76nt read lengths. Total RNA from 2-week-old Arabidopsis thaliana (ecotype Columbia) seedlings grown on MS plates was isolated using RNeasy Plant Mini Kit from Qiagen. To remove any contaminating DNA, RNA was treated with DNAse. Isolation of poly (A) mRNA and preparation of cDNA library were carried out using the Illumina TrueSeq RNA kit. Sequencing (72 cycle) was done on Illumina Genome Analyzer II.
|
| |
|
| Overall design |
2 replicates
|
| |
|
| Contributor(s) |
Rogers MF |
| Citation(s) |
22293517 |
| |
| Submission date |
Sep 22, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Mark Rogers |
| E-mail(s) |
rogersma@cs.colostate.edu
|
| Organization name |
Colorado State University
|
| Department |
Computer Science
|
| Lab |
Ben-Hur
|
| Street address |
1873 Campus Delivery
|
| City |
Fort Collins |
| State/province |
CO |
| ZIP/Postal code |
80523-1873 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL9302 |
Illumina Genome Analyzer II (Arabidopsis thaliana) |
|
| Samples (2) |
|
| Relations |
| SRA |
SRP008348 |
| BioProject |
PRJNA147283 |
