Applications
- To verify the interactions between RNAs and target proteins
- To identify genome-wide networks of RNA-RBP (RNA-binding protein) interactions
- To analyze the interactions between RBP and non-coding RNA (ncRNA), long non-coding RNA (lncRNA), and micro RNA (miRNA)
Benefits
- RIP-seq is multifaceted in interpreting the interaction network between RNA-RBP with respect to ncRNAs, such as lncRNA and miRNA.
- In comparison to CLIP-seq, RIP-seq does not need to perform UV-crosslinking which makes it easily operatable and warrant accurate results.
- The wide coverage allows screening and identification of protein binding sites accurately on the whole genome.
- Combining high-resolution and high-throughput technology enables us to find more new protein binding sites.
Specifications: RNA Sample Requirements
| Sample Type | Required Amount | Peaks Distribution | Purity |
| Enriched RNA Sample | ≥ 100 ng (Concentration ≥ 3 ng/μL) |
For unfragmented sample, fragment should be ≥ 1000 bp. |
A260/280>2.0 |
Specifications: Sequencing and Analysis
| Sequencing Platform | Illumina NovaSeq 6000 Sequencing System |
| Read Length | Paired-end 150bp |
| Recommended Data Amount | ≥ 20 million read pairs per sample for the species with a reference genome |
| Content of Data Analysis | Data quality control
Alignment to the reference genome Peak calling Motif Analysis Peak annotation Functional analysis of peak-associated genes Visualization of RIP-seq data |
Project Workflow
Novogene RIP-seq service comprises four steps, the first step being the sample preparation followed by RNA library preparation and Illumina PE150 sequencing, and finally, data analysis using bioinformatics pipelines. From RNA sampling to obtaining data reports, each step can influence the quality and quantity of data output, directly affecting the results of subsequent bioinformatics analysis. Novogene ensures stringent verification of each step, including sample quality control, library quality control, and sequencing data quality control, to ensure the high quality, accuracy, and reliability of sequencing data and provides comprehensive bioinformatics analysis.
