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Research - CZ Biohub
webbiohub.org·biohub.org/research/
CZ Biohub is a Chan Zuckerberg Initiative research institute; this page is tangentially relevant to AI safety as a showcase of advancing biological AI capabilities, including LLM scientific reasoning and virtual cell models.
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Importance: 28/100homepage
Summary
The Chan Zuckerberg Biohub research page aggregates publications from its teams and partners, covering cutting-edge work in AI-driven biology including foundation models for single-cell transcriptomics, virtual cell construction, and biological reasoning in LLMs. The organization promotes open science through preprints and has supported over 8,000 publications since 2015. Recent work includes AI models for cellular regulation, cross-species generative cell atlases, and guidance methods for diffusion models.
Key Points
- •Hosts publications spanning AI/ML applied to biology: foundation models (GREmLN, TranscriptFormer), virtual cell AI, and scientific reasoning LLMs
- •Includes 'How to build the virtual cell with artificial intelligence' (Cell, 2024) — a priority roadmap for AI-driven biology
- •Features rbio1, a project training LLMs with biological world models as soft verifiers for scientific reasoning
- •Promotes open-access science via preprint deposition; 8,000+ publications supported since 2015
- •Relevant to AI capabilities research: demonstrates rapid advancement of biological AI foundation models and generative approaches
Cited by 1 page
| Page | Type | Quality |
|---|---|---|
| Chan Zuckerberg Initiative | Organization | 50.0 |
1 FactBase fact citing this source
| Entity | Property | Value | As Of |
|---|---|---|---|
| Chan Zuckerberg Initiative | Benchmark Score | 8000 | 2025 |
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# Research
We believe in sharing the research findings of our teams and partners openly to accelerate understanding of human health and disease. We strongly encourage researchers to deposit manuscripts as preprints before peer review to increase access to research findings and to communicate results more quickly. Since 2015, we have supported more than 8,000 publications.
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76 Results
- August 28, 2025
## Tissue-specific clonal selection and differentiation of CD4⁺ T cells during infection
Roham Parsa, Helder Assis, Tiago B.R. de Castro, et al. (2025) \| bioRxiv
[Read more](https://www.biorxiv.org/content/10.1101/2025.08.25.672130v1)
- August 22, 2025
## rbio1-training scientific reasoning LLMs with biological world models as soft verifiers
Ana-Maria Istrate, Fausto Milletari, Fabrizio Castrotorres, et al. (2025) \| bioRxiv
[Read more](https://www.biorxiv.org/content/10.1101/2025.08.18.670981v3)
- July 9, 2025
## GREmLN: A Cellular Regulatory Network-Aware Transcriptomics Foundation Model
Mingxuan Zhang, Vinay Swamy, Rowan Cassius, et al. (2025) \| bioRxiv
[Read more](https://www.biorxiv.org/content/10.1101/2025.07.03.663009v1.article-metrics)
- May 23, 2025
## Variational Control for Guidance in Diffusion Models
Kushagra Pandey, Farrin Marouf Sofian, Felix Draxler, et al. (2025) \| ICML 2025
[Read more](https://arxiv.org/abs/2502.03686)
- April 29, 2025
## A Cross-Species Generative Cell Atlas Across 1.5 Billion Years of Evolution: The TranscriptFormer Single-cell Model
James D Pearce, Sara E Simmonds, Gita Mahmoudabadi, et al. (2025) \| bioRxiv
[Read more](https://www.biorxiv.org/content/10.1101/2025.04.25.650731v1)
- April 9, 2025
## The regulatory architecture of the primed pluripotent cell state
Li, B.I., Alvarez, M.J., Zhao, H. et al.(2025) \| Nature Communications
[Read more](https://www.nature.com/articles/s41467-025-57894-4)
- April 1, 2025
## Systems Human Immunology and AI: Immune Setpoint and Immune Health
Yona Lei, John Tsang (2025) \| Annual Review of Immunology
[Read more](https://www.annualreviews.org/content/journals/10.1146/annurev-immunol-090122-042631)
- February 20, 2025
## Global organelle profiling reveals subcellular localization and remodeling at proteome scale
Marco Hein, Duo Peng, et al. (2025) \| Cell
[Read more](https://www.cell.com/cell/fulltext/S0092-8674(24)01344-8)
- February 14, 2025
## KLF2 maintains lineage fidelity and suppresses CD8 T cell exhaustion during acute LCMV infection
Fagerberg E, Attanasio J, Dien C, et al. (2025) \| Science
[Read more](https://www.science.org/doi/10.1126/science.adn2337)
- January 25, 2025
## Exon inclusion signatures enable accurate estimation of splicing factor activity.
Anglada-Girotto M, Moakley DF, Zhang C, Miravet-Ver
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