|
| Status |
Public on Sep 20, 2024 |
| Title |
Input_REP1 |
| Sample type |
SRA |
| |
|
| Source name |
synthetic RNA
|
| Organism |
synthetic construct |
| Characteristics |
cell type: synthetic RNA
treatment: Input RNA
|
| Treatment protocol |
RNA bind-n-seq experiment to determine RNA specificity
|
| Growth protocol |
N/A synthetic RNA
|
| Extracted molecule |
other |
| Extraction protocol |
N/A synthetic RNA
Protein-bound RNA was concentrated via phenol-chloroform extraction. RNA libraries for sequencing were reverse transcribed with SuperScript IV following manufacturer's protocols, PCR amplified with Phusion DNA polymerase to attach Illumina TrueSeq Small RNA adapters, then agarose gel purified Individual libraries were analyzed via Qubit then normalized for concentration match prior to pooling and sequencing.
|
| |
|
| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
NextSeq 1000 |
| |
|
| Description |
RNA bind n seq experiment
|
| Data processing |
Raw data provided is demultiplexed reads with adapters removed and only unique synthetic reads.
Assembly: N/A
Supplementary files format and content: Raw data provided is demultiplexed reads with adapters removed and only unique synthetic reads.
Library strategy: RBNS
|
| |
|
| Submission date |
Sep 12, 2024 |
| Last update date |
Sep 20, 2024 |
| Contact name |
Brian Yee |
| E-mail(s) |
brian.alan.yee@gmail.com
|
| Organization name |
UCSD
|
| Department |
Health
|
| Lab |
Yeo
|
| Street address |
9500 Gilman Dr
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL34014 |
| Series (2) |
| GSE249247 |
Integrated multi-omics analysis of zinc finger proteins uncovers roles in RNA regulation. |
| GSE277047 |
Integrated multi-omics analysis of zinc finger proteins uncovers roles in RNA regulation [RBNS] |
|
| Relations |
| BioSample |
SAMN43739705 |
| SRA |
SRX26069329 |
