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AI-Powered Digital Library-to-Library Interaction Screening

High-Throughput Many-to-Many PPI Prediction

Perform comprehensive 'many-to-many' screening between two gene/protein libraries using AI-PPI deep learning and MEGADOCK docking to reveal complete interaction networks — millions of pairs screened in days, not months.

Zero Experimental Cost
Confidence-Scored Results
Publication-Ready Figures
Wet-Lab Validation Available
24h Scientific Support

Service Overview

Unlike traditional 'one-to-many' approaches, ICDMO's digital library-to-library screening uses computational deep learning to evaluate every possible pairwise interaction between two protein libraries (bait library A × prey library B). The platform combines MEGADOCK for initial high-throughput docking with AI-PPI for precise secondary analysis, narrowing millions of candidate pairs to high-confidence interaction networks. Ready-to-use whole-genome digital libraries covering 100+ species and transcription factor libraries for 20+ species are available for immediate deployment — zero experimental cost, results in days.

Technical Advantages

Ready-to-Use Libraries
Whole-genome digital libraries for 100+ species and TF libraries for 20+ species — start screening immediately without library construction.
Two-Stage AI Strategy
MegaDock initial screening + AI-PPI deep learning secondary analysis to maximize precision while maintaining high throughput.
Cross-Species Capability
Study virus–host interactions and inter-species protein networks with the same computational pipeline.
Publication-Quality Visualization
Downstream AOS analysis provides 3D protein models (overview + close-up) with binding site analysis, H-bonds, and distance information.
Experimental Validation Support
Results feed directly into Y2H, Y1H, Co-IP, EMSA, BiFC, and dual-luciferase assay validation services.
Extreme Throughput
Screen up to 10 million+ interaction pairs. Turnaround scales from 7 days (10K pairs) to 65 days (8–10M pairs).

Methodology

The platform performs a "many-to-many" interaction screen by: (1) Modeling 3D protein structures for every gene in both libraries using AI-based structure prediction; (2) Running MEGADOCK all-to-all protein docking to generate initial interaction scores; (3) Applying the AI-PPI deep learning model for high-precision secondary analysis; (4) Delivering ranked interaction pairs with gene IDs, modeling scores, and binary interaction calls (1 = predicted interaction, 0 = no interaction), sorted by descending score. The total interaction score represents the predicted docking score between two proteins — higher score indicates greater likelihood of interaction.

Sample Submission Requirements

1Bait Library: CDS (coding sequence) file required
2Prey Library: CDS (coding sequence) file required
3If a specific database version is required, specify clearly at submission
4For cross-species studies, provide species annotation alongside CDS files

Comparison: Digital vs. Traditional Library Screening

Digital Library-to-Library (AI-Powered)

Principle: Computational models simulate structure/sequence binding using deep learning
Materials: Protein sequences or structural models only
Throughput: Extremely high — millions of interactions in days
Cost: Zero experimental reagent cost
Timeline: 7–65 days depending on pair count

Traditional Yeast Library-to-Library (Y2H)

Principle: Experimental yeast growth reporter system
Materials: Constructed bait and prey plasmid libraries required
Throughput: Low — weeks to months for comparable coverage
Cost: Significant reagent and labor cost
Accuracy: High confidence but susceptible to biological background noise

Service Timeline & Deliverables

Interaction Pair CountTurnaroundDeliverables
10,000 < X ≤ 500,000 pairs7 working daysExcel file with gene IDs, modeling scores, interaction status (1/0), sorted by descending score
500,000 < X ≤ 1,000,000 pairs15 working daysComplete interaction dataset with ranked predictions
1,000,000 < X ≤ 2,000,000 pairs20 working daysFull analysis report + interaction network visualization
2,000,000 < X ≤ 4,000,000 pairs25 working daysComprehensive dataset with prioritized hits
4,000,000 < X ≤ 6,000,000 pairs40 working daysFull dataset + downstream AOS analysis available
6,000,000 < X ≤ 8,000,000 pairs50 working daysComplete screening report
8,000,000 < X ≤ 10,000,000 pairs65 working daysComplete screening report + optional 3D visualization

Service Process

1
Online Consultation
2
Solution Matching
3
Service Contract
4
AI Computation
5
Project Report

Note: All services are for research use only and not intended for diagnostic or therapeutic purposes.

Get a Custom Quote

Our scientific team responds within 24 hours with a detailed technical proposal and pricing tailored to your research goals.

Contact Us Online Consultation

Standard Deliverables

Detailed analysis report (PDF)
Raw data files & processed outputs
High-resolution publication figures
Interaction scoring tables (Excel)
Project summary presentation

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