|
| Status |
Public on Dec 09, 2024 |
| Title |
Bulk RNA sequencing data of intact and digested rice root for Single-cell RNA-seq protoplasting induced gene filtering |
| Organism |
Oryza sativa |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We report raw bulk RNA sequencing data of intact rice roots and digested rice roots
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| |
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| Overall design |
Intacted roots (directly harvested from gel grown conditions) and digested roots (protoplasts + undigested chunks) were havested. Samples were frozen in liquid nitrogen and RNA was isolated using the Zymo MagBead RNA Isolation kit. RNA was used as input into the Lexogen QuantSeq 3′ FWD RNA-Seq library preparation procedure. Libraries were indexed and pooled on an Illumina NextSeq. Reads were aligned to Michigan State University Rice genome v7 counted with HTSeq-Count.
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| Contributor(s) |
Zhu M, Hsu C, Lucas OP, Taylor IW, Mijar M, Nolan TM, Sadanandom A, Bennett MJ, Benfey PN, Pandey BK |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Dec 04, 2024 |
| Last update date |
Dec 09, 2024 |
| Contact name |
Philip Benfey |
| E-mail(s) |
[email protected]
|
| Organization name |
Duke University
|
| Street address |
124 Science Drive
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27710 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL21087 |
Illumina NextSeq 500 (Oryza sativa) |
|
| Samples (8)
|
| GSM8664467 |
Directed harvested X.kitaake roots no protoplasting Rep #1 |
| GSM8664468 |
Directed harvested X.kitaake roots no protoplasting Rep #2 |
| GSM8664469 |
Directed harvested X.kitaake roots no protoplasting Rep #3 |
| GSM8664470 |
Directed harvested X.kitaake roots no protoplasting Rep #4 |
| GSM8664471 |
Directed harvested X.kitaake roots protoplasting Rep #1 |
| GSM8664472 |
Directed harvested X.kitaake roots protoplasting Rep #2 |
| GSM8664473 |
Directed harvested X.kitaake roots protoplasting Rep #3 |
| GSM8664474 |
Directed harvested X.kitaake roots protoplasting Rep #4 |
|
| Relations |
| BioProject |
PRJNA1194134 |
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