The Systems

Research Agent

The Research Agent is a domain-specific AI research assistant purpose-built to advance molecular biology, bioinformatics, and drug discovery. Designed as an interactive conversational interface, it integrates biological databases, molecular modeling engines, and computational toolkits into a unified, adaptive environment. Through its biologically literate dialogue system, our agents support contextual, multi-turn conversations that help scientists ask targeted questions, execute analytical workflows, and iteratively refine hypotheses. Its architecture supports persistent sessions, real-time data updates, and automated workflow generation, streamlining every step from hypothesis formation to validation and insight discovery.

Revilico’s Agentic Ecosystem

Revilico is on a mission to build a self-sustaining, super-intelligent AI system composed of interconnected agents that work harmoniously to accelerate scientific innovation. At its core, the system is designed to transform how ideas are conceived, researched, and validated from literature exploration to experimental design.

RevCortex

The RevCortex engine serves as the central intelligence layer, interfacing with more than 4,000 petabytes of biomedical data. It dynamically queries, curates, and integrates information across all major biological modalities DNA, RNA, proteins, epigenetics, compound sets, STRING and KEGG databases, gene ontologies, and many more. By leveraging an intricate agentic architecture and Model Context Protocol (MCP), RevCortex ensures automated data harmonization and continuous learning. The result is a dynamic, living system that empowers scientists with the collective knowledge of decades of biomedical research, enabling unprecedented data fluency and discovery speed.

RevInterpreter

The RevInterpreter layer adds depth, intelligence, and accessibility to the user experience through a three-phase adaptive guidance system:

1. Engine Navigation: Directs scientists to the optimal engines and configurations for their specific goals no prior system knowledge required.

2. Interactive Configuration: Provides real-time support as users set experimental parameters and choose computational frameworks.

3. Interpretation of Results: Walks alongside researchers as analyses run, helping interpret outputs and translating results into actionable biological understanding.

RevInterpreter ensures every scientist can operate within Revilico’s ecosystem efficiently, transforming previously complex computational tools into intuitive experimentation.

RevMachina

As AI technology evolves, RevMachina represents Revilico’s execution engine, a fully agentic interface that performs all analytical operations through natural language. Through RevMachina, users can initiate complex workflows, spanning database queries, code execution, visual analytics, and computational orchestration, simply by describing their objectives conversationally. The system autonomously executes tasks and generates scientific insights, creating a seamless, end-to-end bridge between thought and discovery without manual intervention.

The Research Agent Algorithm

The agent's framework integrates natural language understanding with modular bioinformatics computation. Each user query is semantically parsed to identify relevant biological entities (genes, proteins, pathways) and analytical tasks (alignment, descriptor generation, prediction).

The query is then routed to specialized processing nodes:

• Molecular Biology Module: sequence analysis, PCR design, mutation annotation

• Bioinformatics Module: feature extraction, homology search, data interpretation

• Drug Discovery Module: molecular descriptor generation, property prediction, structural analysis

Outputs are synthesized through a response-ranking model that ensures interpretability, traceability, and reproducibility. Persistent conversational context allows for iterative refinement, enabling multi-step reasoning and continuous exploration across sessions.

Algorithm Validation

Research Agent's computational accuracy is rigorously validated across multiple benchmark datasets:

• Annotation & Feature Extraction: Benchmarked on NCBI RefSeq, UniProt, and ChEMBL, ensuring biological correctness.

• Primer Design & PCR Optimization: Validated for melting-temperature accuracy and secondary structure avoidance, matching state-of-the-art PCR design tools.

• Molecular Descriptor Generation: Cross-checked with RDKit and Mordred to ensure numerical precision and consistency.

• Conversational Continuity: Multi-turn dialogues tested to maintain over 95% contextual retention, ensuring correctness in long-form scientific reasoning.

This comprehensive validation guarantees scientific reliability and establishes the agent as a trustworthy computational collaborator.

Scientific Impact

The Agentic system unifies reasoning and computation within a single intelligent dialogue. By consolidating sequence characterization, structure-function analysis, and compound screening into one interface, it dramatically simplifies the research workflow. Researchers can now formulate hypotheses, execute analyses, and interpret data within minutes, without switching between disparate tools or platforms. This integration fosters reproducibility, collaboration, and cross-domain exploration across genomics, proteomics, and cheminformatics.

Business Impact

From a business perspective, the agents deliver transformative value by integrating domain intelligence with conversational accessibility. It reduces the friction traditionally associated with high-complexity computational analyses, eliminating time spent on data formatting, software configuration, and tool selection. For R&D teams, the agentic systems act as a continuously available AI research partner, augmenting design, analysis, and validation workflows to accelerate decision-making in discovery and preclinical pipelines. Ultimately, Revilico's agent systems enhance organizational productivity, reduce operational costs, and shorten innovation cycles, enabling enterprises to move from hypothesis to validated insight with unprecedented efficiency.

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