RAP based RNA-Protein Interaction Analysis Service

Mapping the Spatial RNA Regulatory Code with Nucleus-Resolved Resolution

Creative Biolabs' RNA Antisense Purification (RAP) technology empowers you with complete control to interrogate your spatial interactome of choice. We help you visualize endogenous RNA-protein-chromatin complexes in their native architecture for the first time, revealing new layers of information on transient interactions, low abundant regulatory RNAs and dynamic rewiring of interactions. We offer a one-stop preclinical solution for epigeneticists interested in charting lncRNA-mediated 3D genome architecture, cancer biologists probing oncogenic RNA networks, virologists mapping viral RNA-host interplay, and neurobiologists investigating phase-separated condensates to advance mechanistic understanding of disease pathology to new heights.

Technology Snapshot: How RAP Reveals Hidden RNA Networks

RAP (RNA Antisense Purification) captures RNA-protein-chromatin complexes exactly as they exist in living cells. By using sequence-specific probes to "fish out" target RNAs directly from their native environment, this method preserves interactions that vanish during conventional extraction.

Why Researchers Trust Our RAP Platform

✔️ Multi-Complex Resolution

Solve: Isolating all interacting components (RNA + protein + DNA) from one sample—no more fragmented data.

• You get: Complete 3D regulatory hubs, like seeing how a lncRNA team recruit's proteins to switch genes on/off.

✔️ Low-Abundance Sensitivity

Solve: Detecting rare RNAs that slip through other methods.

• You get: Visibility into elusive regulators (e.g., viral RNAs or enhancer molecules), revealing hidden disease mechanisms.

✔️ True Spatial Fidelity

Solve: "Freezing" interactions mid-action with in-situ crosslinking.

• You get: Real-time snapshots of dynamic processes (e.g., how stress rewires RNA networks within minutes).

Our Breakthrough Capabilities

Multi-Complex Resolution

• Solve the fragmentation challenge: Simultaneously isolate RNA-bound proteins and chromatin contacts from a single sample.

• Empowers researchers to reconstruct integrated regulatory hubs with spatial fidelity.

Low-Abundance Sensitivity

• Make the undetectable detectable: Our unique signal amplification strategies can detect structural RNAs at endogenous levels.

• Allows visualization of low abundant regulatory RNAs undetectable by traditional approaches.

Spatial Fidelity -Mapping in situ

• Prevents losses: In situ crosslinking "freezes" interactions as they naturally occur in the cell.

• Provides a true map of interactions for dynamic processes.

Featured Services

End-to-End Solutions - Comprehensive Service Offerings

Fig.1 RAP RNA-Protein Interaction Analysis Workflow.

• Endogenous RNA Interactome Profiling

We provide complete support to map RNA-centric regulatory hubs, solving the critical challenge of capturing transient interactions in live cells. Our species-optimized workflows deliver spatially resolved networks, empowering clients to uncover novel disease-relevant targets with uncompromised biological relevance.

• Profiling RNA-Mediated Nuclear Architecture Dynamics

We offer a turnkey service for RNA-mediated nuclear architecture profiling. Our in-situ crosslinking strategies overcome the limitations of low input material with experimental challenges. This enables clients to decode 3D genome folding mechanisms, advancing research in development and oncology without requiring antibody-based capture.

• Functional Validation Integration

We bridge interaction mapping and mechanistic confirmation through multi-omics correlation, solving target prioritization challenges by designing orthogonal validation strategies. This transforms descriptive data into actionable insights with accelerated publication pathways.

Related Services

Emerging Research Applications

1. Chromatin Topology Regulation

• Enhancer-Promoter Coordination: RAP-defined lncRNA hubs mediate spatial looping in cardiac development models
• Compartment Boundary Control: Viral RNAs alter TAD insulation through host factor recruitment

2. Disease-Relevant Reprogramming

• Oncogenic Circuit Mapping: RAP-MS uncovered fusion RNA-guided chromatin remodeling in leukemia
• Neurodegenerative Granules: Phase-separated RNA-protein condensates disrupt nuclear transport in ALS

3. Dynamic Network Adaptation

• Metabolic Stress Response: Real-time tracking of mitochondrial RNA interactome rewiring
• Differentiation Trajectories: Single-cell RAP resolves lineage-specific regulatory hubs

Partner with Creative Biolabs

Why Choose Us?

Unparalleled Service Scope for Complex Research Needs

We provide comprehensive RAP solutions for a wide range of non-clinical research applications – from 3D genome architecture to viral RNA biology, oncogenic mechanisms to neurodevelopmental processes, exclusively for research use and with your own research grade samples. Integrates with proteomics, and perturbation studies for a holistic view of multi-layered regulatory networks not possible with a single approach alone.

Unified Technology Ecosystem

• Cross-Method Synergy: Combine RAP with complementary approaches like ChIRP under coordinated experimental designs
• Multi-Omic Correlation: Synchronize RNA interactome data with epigenomic profiles (ATAC-Seq/ChIP-Seq) for mechanistic depth
• Spatial Validation Bridge: Transition findings to multiplexed FISH or immunofluorescence for tissue-context confirmation

Dedicated Scientific Partnership

• PhD-Level Project Design: Experts with 5+ years in RNA spatial biology develop species- and condition-optimized strategies
• Mechanistic Interpretation Workshops: Collaborative sessions contextualizing data through disease biology frameworks
• Funding Proposal Support: Specialized assistance translating discoveries into grant-ready figures for NIH/ERC applications

Rigorous Quality Commitment

• Phase-Specific QC: Muti-stage quality checkpoints from sample intake to data delivery
• Orthogonal Validation: Key findings confirmed via independent methods
• Transparency Protocol: Full access to raw data with analysis parameter documentation

We've successfully delivered 50+ non-coding RNA projects, empowering breakthroughs in nuclear architecture and disease mechanisms.

Initiate Your Project

Share your target RNA(s), biological model and key questions. Our specialists will provide:

• Customized hybridization strategy
• Species-specific optimization plan
• Multi-omic integration roadmap

[Contact Us] Schedule a technical consultation within 24 hrs.

FAQs

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Reference

1. Liu, Haoquan, et al. "RNA-protein interaction prediction using network-guided deep learning." Communications Biology 8.1 (2025): 247. Distributed under Open Access license CC BY-NC 4.0, without modification. https://doi.org/10.1038/s42003-025-07694-9