patsnap-biological-modality

name	patsnap-biological-modality
description	Biological sequence and modality intelligence via Patsnap MCP.
homepage	https://open.patsnap.com/marketplace/mcp-servers/biology-modality
metadata	{"author":"Patsnap","category":"Life Science","version":"1.0.0","requires":{"mcp_endpoint":"https://connect.patsnap.com/06e741/logic-mcp?apikey=YOUR_API_KEY"}}

Setup

Get your API Key at https://open.patsnap.com

Patsnap Biology Modality

This skill connects your AI agent to Patsnap's Biology Modality MCP server — providing professional-grade biological sequence and modality analysis capabilities.

With this skill, your agent can navigate the world of large molecules, from sequence-based patent searching to antibody-antigen interaction discovery and multi-omics data retrieval.

Prerequisites

This skill requires the Patsnap Biology Modality MCP server to be configured in your environment:

{
  "mcpServers": {
    "biology_modality": {
      "url": "https://connect.patsnap.com/06e741/logic-mcp?apikey=YOUR_API_KEY",
      "type": "streamableHttp"
    }
  }
}

Get your API key at open.patsnap.com.

For the full list of available tools and input parameters, refer to the official MCP server documentation: https://open.patsnap.com/marketplace/mcp-servers/biology-modality

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Instructions for AI Agents

Step 1: Sequence Identification & Normalization

When a user provides a protein or nucleotide sequence (FASTA format) or a gene name, use the biological normalization tools to resolve the entity to a standard ID or sequence.

Step 2: Sequence-Based Search

• Use Sequence Identity Search to find homologs in patents and literature.
• Use Motif Search to identify specific functional regions within a sequence.
• Filter results by organism, sequence length, and patent publication date.

Step 3: Modality-Specific Analysis

• For Antibodies: Analyze CDR regions and antigen binding affinity.
• For Nucleotides: Investigate gene expression and multi-omics associations.

Step 4: Output Synthesis

Present biological data with:

• Sequence alignments showing identity and gaps.
• Functional annotations (e.g., active sites, PTMs).
• IP landscape summaries for specific sequences.

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Example Workflows

Antibody IP Clearance

1. Input an antibody heavy/light chain sequence.
2. Run sequence identity search across global patent databases.
3. Identify patents with high-identity sequences that may pose FTO risks.

Target Discovery Support

1. Input a gene or protein name.
2. Retrieve associated multi-omics data and expression profiles.
3. Search for similar sequences in literature to identify potential functional homologs.

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Resources

• Patsnap Life Sciences: eureka.patsnap.com/ls-landing
• MCP Server: open.patsnap.com/marketplace/mcp-servers
• API Docs: open.patsnap.com/developers