Introduction

The significance of RNA-protein interactions in influencing the function of both mRNA and noncoding RNA is increasingly recognized, leading to the development of various methods to map these interactions. One such powerful technique is RNA immunoprecipitation (RIP), designed to investigate the physical association between individual proteins and RNA molecules in vivo. While RIP shares fundamental principles with chromatin immunoprecipitation (ChIP), a widely used tool in the epigenetic field, there are notable distinctions.

RIP involves employing a specific antibody raised against the protein of interest to precipitate the RNA-binding protein (RBP) and the associated target-RNA complexes. Any RNA associated with this protein complex is subsequently isolated and can undergo further analysis through polymerase chain reaction-based methods, hybridization, or sequencing. (Gagliardi, 2016)

Applications

  • Validating interactions between RNAs and target proteins
  • Mapping genome-wide networks of RNA-binding protein (RBP) interactions
  • • Analyzing associations between RBPs and non-coding RNA (ncRNA), long non-coding RNA (lncRNA), and
    microRNA (miRNA)(Luke A. Selth, 2011)

Benefits

  • RIP-seq offers a versatile approach for deciphering the interaction network between RNA and RNA-binding proteins (RBPs), particularly in relation to noncoding RNAs (ncRNAs) like lncRNA and miRNA.
  • Its extensive coverage facilitates precise screening and identification of protein binding sites across the entire genome.
  • The integration of high-resolution and high-throughput technologies enhances the discovery of novel protein binding sites..(Wheeler, 2018)

RIP-seq Specifications: RNA Sample Requirements

Genoxvision Workflow of RIP-seq Service

The RIP-seq service offered by the company involves a four-step process. The initial step includes sample preparation, followed by RNA library preparation, sequencing, and ultimately, data analysis through bioinformatics pipelines.

Every stage, from RNA sampling to the generation of data reports, holds the potential to impact the quality and quantity of data output, thereby directly influencing subsequent bioinformatics analysis results. Genoxvision places a strong emphasis on rigorous verification at each step, encompassing sample quality control, library quality control, and sequencing data quality control. This commitment ensures the sequencing data’s high quality, accuracy, and reliability, coupled with the provision of comprehensive bioinformatics analysis.