AlphaGenome

Overview

Disclaimer: Experimental.

The AlphaGenome Private Preview is a "Pre-GA Offering" subject to the "Pre-GA Offerings Terms" in the General Service Terms section of the Google Cloud Service Specific Terms. It is also a “Generative AI Preview Product” as defined in and subject to the Additional Terms for Generative AI Preview Products. Pre-GA products are available "as is" and might have limited support. For more information, see the launch stage descriptions.

Access to the AlphaGenome model capabilities requires application and approval. Users must be added to an allowlist to use the service. If you are interested in applying to the program, Request Access above.

AlphaGenome is Google DeepMind’s unifying model for deciphering the regulatory code within DNA sequences.

AlphaGenome offers multimodal predictions, encompassing diverse functional outputs such as gene expression, splicing patterns, chromatin features, and contact maps (see diagram below). The model analyzes DNA sequences of up to 1 million base pairs in length and can deliver predictions at single base-pair resolution for most outputs.

Training data was sourced from large public consortia including ENCODE, GTEx, 4D Nucleome and FANTOM5, which experimentally measured these properties covering important modalities of gene regulation across hundreds of human and mouse cell types and tissues.

Use Cases

Sequence-to-function predictions: Predict multiple functional tracks (such as gene expression, splicing) from DNA sequences across a wide variety of tissues and cell types.
Variant effect scoring: Assess the impact of genetic variants by comparing predictions for the reference and alternative alleles and summarising the differences between them.
Identify functional regions: Use in silico mutagenesis (ISM) to identify functionally important regions in the DNA sequence.
Human and mouse capability: Generate predictions for both human and mouse genomes.

Documentation

This API provides access to AlphaGenome, Google DeepMind's unifying model for deciphering the regulatory code within DNA sequences. AlphaGenome offers multimodal predictions, encompassing diverse functional outputs including gene expression, splicing patterns, chromatin features, and contact maps (see diagram below). The model analyzes up to 1 million base pairs of DNA sequence and can deliver predictions at single base-pair resolution for most modalities. AlphaGenome achieves state-of-the-art performance across a range of genomic prediction benchmarks, including diverse variant effect prediction tasks.

The Google Cloud API for AlphaGenome provides a way for Google Cloud customers to explore the AlphaGenome API for commercial use cases. This API is in private preview (Request Access above). Once allowlisted, customers can access the API directly or use the colab.

Acknowledgements

Avsec, Ž., Latysheva, N., Cheng, J., Novati, G., Taylor, K. R., Ward, T., ... Kohli, P. (2025). AlphaGenome: advancing regulatory variant effect prediction with a unified DNA sequence model. bioRxiv. https://doi.org/10.1101/2025.06.25.661532

Contact

If you have any questions on using these models on Google Cloud please contact: alphagenome-cloud-external@google.com or join the community Discourse for more generic questions on AlphaGenome.

Pricing

Access to AlphaGenome on Vertex AI is currently restricted. To utilize these models via this service:

You must Request Access using your Google contact.
Your application will be reviewed, and if approved, you will be added to an allowlist.
Only allowlisted users can access the API
Pricing information will be shared directly with users upon approval and placement on the allowlist.

Quick start inference

The quickest way to get started with the AlphaGenome in Google Cloud Platform is to run our example notebook in Google Colab.

Quick start finetune

The quickest way to get started with the AlphaGenome fineutning in Google Cloud Platform is to run our finetuning notebook in Google Cloud Platform Enteprise Colab.

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