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AlphaGenome Unpacked: Promise, Progress, and What Comes Next for AI in Genomics

What the AI Co-Scientist Paper Actually Demonstrates for Biologists and Data Scientists

July 17, 2025
10:30 AM PT

Join us for a deep dive into DeepMind’s newest foundation model for regulatory genomics - and where it goes next. AlphaGenome is DeepMind’s boldest step yet in decoding the regulatory genome. A single deep learning model that predicts thousands of functional genomic outputs - from gene expression and splicing to 3D genome structure - based on just 1 Mb of DNA sequence. It’s already setting new benchmarks:

  • Outperforms tools like Borzoi, ChromBPNet, Orca, and SpliceAI
  • Achieves base-pair resolution across 11 modalities and 5,930 human tracks
  • Predicts variant effects across all modalities in <1 second on a single GPU

But what does that mean for biomedical researchers? And what’s still missing?

We’ll break down where AlphaGenome excels, where gaps remain, and how tools like curated knowledge graphs, structured biological context, and Elucidata’s AI Co-Scientist help translate model outputs into real-world discoveries.

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Real-World Applications We’ll Cover

  • Scaling clinico-genomic data integration: Large pharmaceutical organizations working with external data providers used Polly to build interoperable clinico-genomic data products 6x faster.
    Although purchased datasets are often labeled as "clean," they still lack interoperability—Polly's pipelines bridge this gap with robust integration and harmonization.

  • Information Retrieval: Drug safety monitoring teams used Polly's Knowledge Graph powered co-scientist to conversationally retrieve the right cohorts & assess drug response—cutting discovery time by 70%.

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Join us for a behind-the-scenes look at a Multi-agent AI system that achieves:
  • 93% recall across 23 key metadata fields including tissue, disease, cell line, donor ID, and treatment.
  • Outperformance of GPT-4.1 single-pass prompting on accuracy, F1 score, and traceability.
  • Curation of 4652 samples from 78 GEO datasets in days instead of weeks.
  • 4x reduction in manual effort equivalent to replacing a 3-person expert team working for 1 month.
  • Human-level accuracy, with 100% concordance on disease and 97% on gender based on CellxGene benchmarks.
  • Traceable records with field-level evidence attribution and confidence scores.
Register for our webinar to see how the Agentic AI system fits into scalable data workflows.

What You’ll Learn

  • Decoding the Regulatory Dark Matter

How AlphaGenome helps uncover non-coding variants that drive complex disease-and reveals new drug targets.

  • Accelerating Gene & Cell Therapy Design

Learn how high-impact variant prediction fuels CRISPR, AAV, and synthetic biology pipelines.

  • Predicting Patient-Specific Drug Response

Explore pharmacogenomic use cases for patient stratification and therapeutic response.

  • Smarter Synthetic Biology Tools

See how AlphaGenome supports the design of tissue-specific regulatory elements and circuits.

  • Drug Repurposing with Mechanistic Clarity

Understand how shared variant-driven pathways suggest new indications for approved drugs.

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Why This Matters for Biomedical Researchers

If you’re working with complex biological data, you may be asking:

  • Can generative AI truly assist in scientific reasoning, not just data analysis?

  • What does it mean for hypothesis generation, literature review, or even designing experiments?

  • Could this accelerate—not replace—my discovery pipeline?

Whether you're skeptical, curious, or already experimenting with AI in your lab—this is a session designed to ground your understanding in evidence, not speculation.

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Why This Matters TO YOU

  • Unified, Multi-Modal Output from a 1 Mb input sequence at 1 bp resolution
  • CNN + Transformer + U-Net Hybrid captures both local motifs and long-range dependencies
  • +42% Improvement in predicting cell-type-specific 3D genome contacts
  • Direct Splice-Junction Prediction, vital for rare disease interpretation
  • Subsecond Variant Evaluation across thousands of genomic features
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Meet the Expert of this discussion
Rahul Tyagi
Senior Scientific Engagement Manager
Key Takeaways
How data providers ensure adherence to quality standards through validation and compliance.
How GUI-based workflows, CLI tools, and collaborative workspaces enable streamlined data ingestion and synchronization at scale.
Understand how automated pipelines assess conformance, plausibility, and consistency, ensuring high-quality, AI-ready data products.
Key Takeaways
Reduce operational costs by streamlining data delivery through reusable, governed products.
Accelerate diagnostic development and clinical trial execution by delivering compliant, high-quality data at scale.
Improve audit readiness and regulatory confidence through governed data products and built-in quality assurance.
Equip cross-functional teams to act on trusted data—faster, and with greater confidence.
Who Should Attend?

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