NeurIPS 2026 Workshop: Foundation Models for the Brain and Body
NeurIPS · NeurIPS 2026, Sydney · 2026-12-11
NeurIPS 2026 workshop on FMs for brain and body (Dec 11-12, Sydney).
Year: 2026
55 items, newest first.
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AgenticLS @ NeurIPS 2026 — Agentic AI for Biological Discovery
NeurIPS · NeurIPS 2026, Sydney · 2026-12-11
NeurIPS 2026 workshop on agentic AI for biology.
SIMBIOCHEM II · NeurIPS 2026 Workshop on ML for Simulation
NeurIPS · NeurIPS 2026, Sydney · 2026-12-11
NeurIPS 2026 workshop on ML for biochemical simulation.
SNO 2026 31st Annual Meeting
Society for Neuro-Oncology · Philadelphia, PA (to Nov 15) · 2026-11-12
SNO 2026, Nov 12-15, Philadelphia; SNO 2027 Nov 18-21 Phoenix.
Engineered regulatory states resolve context-dependent genetics in macular degeneration
Metzner E, Guruvayurappan K, Southard KM, Ardy RC, Dey KK, Norman TM. · bioRxiv · 2026-10-12
Norman/Dey labs (MSKCC): CRISPRa Multiome Perturb-seq of 119 TFs + dual-guide Perturb-seq of 1,225 TF pairs in RPE-1; chromatin priming predicts emergent states; Mosaic (Transformer) predicts TF-pair interaction residuals (r=0.484) and nominated a validated triple-TF combination.
A State-Resolved Single-Cell and Spatial Atlas Reveals IDH-Associated Differences in Malignant and Immune Architecture in Diffuse Glioma.
Zaman A et al. · MedComm · 2026-10-04
State-resolved sc+spatial atlas of IDH-associated differences in glioma.
ISP 3 Platform powered by Geneformer: Framework for Cross-Species, Sequential, and Multi-Gene In Silico Perturbation Screens with Application to iPS Cell State Transitions
Sanaki Y, Shigenobu S, Niwa R. · bioRxiv · 2026-09-24
ISP3 platform: Geneformer-based sequential multi-gene in silico perturbation.
EANO 2026 (21st meeting)
European Association of Neuro-Oncology · Rome, Italy (to Sep 27) · 2026-09-24
EANO 2026 Sep 24-27, Rome (already passed).
Beyond the drug-centric view: Advancing AI virtual cell platforms for environmental perturbation modelling.
Ukaegbu D, Curean V, Bender A, Maertens A. · ALTEX · 2026-09-17
Perspective on AI virtual cell platforms for environmental perturbation modelling.
Spatial and single-cell dissection of medulloblastoma identifies developmental hierarchies and a prognostic PPIA-BSG tumor-immune axis.
Chen M, Duan B, Zhang J, Daniels C, Hu C, Yuan J, Guo J, Taylor MD, Shi X, Zhang L, Li D, Sun T. · Journal of translational medicine · 2026-09-15
Spatial + single-cell dissection of medulloblastoma hierarchies (2026).
An operational perturbation proteomics-based virtual cell model.
Sun R et al. · Nature · 2026-09-09
Nature 2026: operational perturbation-proteomics-based virtual cell model.
Tahoe-100M: Mapping drug-induced molecular phenotypes at single-cell resolution.
Zhang J et al. · Cell · 2026-09-01
Tahoe-100M peer-reviewed (Cell 2026).
scBaseCount: An AI agent-curated, standardized, auto-updated single-cell data repository.
Youngblut ND et al. · Cell · 2026-09-01
scBaseCount: AI-agent-curated, auto-updated single-cell repository (Arc).
A world model of the virtual cell
Xing et al. · Cell · 2026-09
Cell peer-reviewed version of VCWM: persistent multimodal virtual-cell world model vs task-specific predictors.
Predicting cellular responses to perturbation across diverse contexts with State.
Adduri AK et al. · Cell · 2026-08-31
State (Arc Institute): state-embedding + transition model across 70 contexts; Cell 2026.
Virtual Cell Challenge 2026: Benchmarking zero-shot generalization across cellular contexts.
Arc Virtual Cell Initiative Team, Goodarzi H. · Cell · 2026-08-26
Virtual Cell Challenge 2026 paper: benchmarking zero-shot generalization across contexts.
Virtual Cell Challenge 2026 (zero-shot, 6 unseen cell lines)
Arc Institute · virtualcellchallenge.org · 2026-08-20
2026 challenge: validation since Aug 20; final test set Oct 22; submissions due Nov 5 23:59 UTC; winners mid-late Nov (Arc official).
AIDO Cell: a general-purpose simulator for cell biology
GenBio AI · GenBio web · 2026-08-18
Stateful multimodal virtual cell simulator (K562, HepG2).
Biological domain shift and statistical nesting concerns in generative AI-based spatial tumor growth prediction for pediatric diffuse midline glioma.
Li W, Sun X, Pei S. · BMC medicine · 2026-08-12
Critique of the DMG generative growth study (domain shift, nesting).
PerturbLDM: conditional latent diffusion for modelling single-cell perturbation responses
Yu et al. · bioRxiv · 2026-08-12
PerturbLDM: Tahoe-100M-pretrained latent diffusion for conditional sc response generation across drug/dose/cell-line.
UniPert-G2CP bridges genetic and chemical screens from molecular representation to phenotype modeling
Li et al. · Cell · 2026-08
UniPert-G2CP: unified genetic/chemical perturbagen embeddings + CRISPR-to-drug phenotype transfer for AIVC.
Assessing scale and predictive diversity in models for single-cell transcriptomics based on Geneformer.
Chen J, Schmidt F, Henao R. · PLoS computational biology · 2026-07-30
Assessing scale and predictive diversity of Geneformer-based models.
Core2Edge: a human glioblastoma organoid-brain slice model capturing infiltration and transcriptional heterogeneity from core to single-cell dispersion.
Melhem A et al. · Nature protocols · 2026-07-28
Core2Edge: GBM organoid-brain slice infiltration model (Nat Protoc).
An Empirical Comparison of Virtual Cell Models: Perturbation Prediction, Representation, and the Baseline Gap
Denvis O. · Research Square · 2026-07-22
Empirical comparison of virtual cell models: the baseline gap persists.
Systematic evaluation of single-cell foundation model interpretability: attention-derived edge scores add no incremental value over gene-level features for perturbation-target prediction.
Kendiukhov I. · BMC genomics · 2026-07-22
Attention-derived edge scores in scFMs add no GRN information beyond baselines.
Causal Models Need Causal Data - Xaira's X-Cell (podcast)
Latent Space · Latent Space podcast · 2026-07-21
Podcast: why causal (Perturb-seq) data and diffusion beat linear baselines.
ISMB 2026
ISCB · Washington, DC (to Jul 16) · 2026-07-12
ISMB 2026, Jul 12-16, Washington DC (from search summary).
ICML 2026 3rd Workshop on Multi-modal FMs & LLMs for Life Sciences
ICML · ICML 2026, COEX Seoul · 2026-07-11
ICML workshop incl. virtual-cell world model papers.
A World Model of the Virtual Cell (ICML 2026)
ICML 2026 · ICML 2026 · 2026-07
Proposes virtual cell world model (VCWM) as operational definition.
Lessons from Ron Alfa (Noetik) on AI-native precision oncology
Pear Healthcare Playbook · Substack · 2026-06-30
Interview on Noetik's virtual cell foundation models licensed to GSK.
Single-cell and spatial transcriptomes reveal oligodendrocyte remodeling fatty acid metabolism microenvironment of lung cancer brain metastases.
Yang Y, Gao Y, Qi Z, Li S, Wang Z, Li D, Chen L, Zhou C, Feng M, Chen X, Hao B, Wu X, Li L, Cao Y. · Journal of translational medicine · 2026-06-16
Oligodendrocyte fatty-acid remodeling in brain metastasis (sc+spatial).
Automated and personalized glioblastoma tumor organoid drug screening platform exposes sensitivity to proteasome and HDAC inhibitors.
Jungwirth G et al. · NPJ precision oncology · 2026-06-16
Automated personalized GBM organoid drug screening platform.
Cellfm-datasets: A Unified Data Infrastructure for Single-Cell and Spatial Transcriptomics Foundation Model Pretraining
Zhang L, Pang J, Yan J, Tang W, Deng Y, He Y. · bioRxiv · 2026-06-14
CellFM-datasets: unified data infrastructure for single-cell/spatial.
RECOMB 2026
RECOMB · Thessaloniki, Greece (to May 29) · 2026-05-26
RECOMB 2026 (RECOMB 2027 reportedly Toronto; dates not confirmed).
Generative AI for spatial tumor growth on MRI: a proof-of-principle study in pediatric diffuse midline glioma.
Laslo D et al. · BMC medicine · 2026-05-18
Generative AI forecasting spatial tumor growth on MRI in pediatric DMG.
TumorTwin: a Python framework for patient-specific digital twins in oncology
Kapteyn et al. · BMC Med Inform Decis Mak · 2026-05-11
Open modular Python framework for patient-specific tumor digital twins; HGG growth/RT response demo.
TxPert: using multiple knowledge graphs for prediction of transcriptomic perturbation effects.
Wenkel F et al. · Nature biotechnology · 2026-05-01
TxPert: multiple knowledge graphs for transcriptomic perturbation prediction.
LMRL Workshop @ ICLR 2026 (virtual cells)
ICLR · ICLR 2026, Rio de Janeiro · 2026-04-27
Learning Meaningful Representations of Life workshop focused on virtual cell bottlenecks.
Discovery of candidate therapeutic targets with Geneformer.
Zhang Y, Venkatesh MS, Theodoris CV. · Nature protocols · 2026-04-23
Nature Protocols: discovering therapeutic targets with Geneformer in silico perturbation.
A Proteome-Calibrated Mechanistic Digital Twin of the Glioblastoma Astrocyte Derived from Patient Multi-Omic Data
Mayfield JD. · bioRxiv · 2026-04-23
Proteome-calibrated mechanistic digital twin of the GBM astrocyte (bioRxiv 2026).
A longitudinal single-cell and spatial multiomic atlas of pediatric high-grade glioma.
Sussman JH et al. · Cell reports. Medicine · 2026-04-23
Longitudinal single-cell & spatial atlas of pediatric high-grade glioma.
Signal, Bounds, and Baselines: Principles for Evaluating Virtual Cell Perturbation Models
Vollenweider M, Bühlmann P. · bioRxiv · 2026-04-22
Signal, Bounds, and Baselines: principles for evaluating virtual cell perturbation models.
Training transformers to solve cancer trial failure — Ron Alfa & Daniel Bear, Noetik
Latent Space · Latent Space podcast · 2026-04-20
Noetik's tumor spatial 'virtual cell' models (TARIO-2) and $50M GSK deal.
Harnessing AI to Build Virtual Cells (VCHarness)
Cheng et al. · bioRxiv · 2026-04-14
VCHarness: autonomous AI coding agent that searches/refines perturbation-response model architectures for virtual cells.
Scaling Bio 007: Xaira's Bo Wang and Ci Chu on building the virtual cell
Decoding Bio · Substack · 2026-03-30
Interview with Bo Wang & Ci Chu on X-Cell and generalization limits.
Xaira's first virtual cell model is largest to-date
GEN · GEN · 2026-03-25
GEN on X-Cell; includes Noetik CEO Ron Alfa's tissue-first counterpoint.
X-Cell: Scaling Causal Perturbation Prediction Across Diverse Cellular Contexts via Diffusion Language Models
Wang C et al. · bioRxiv · 2026-03-20
X-Cell (Xaira): 4.9B-param diffusion model, perturbation scaling laws.
AetherCell: A generative engine for virtual cell perturbation and in vivo drug discovery
Li et al. · bioRxiv · 2026-03-16
AetherCell unifies clinical RNA-seq and perturbation assays for generative response prediction and in vivo repurposing.
Towards building a World Model to simulate perturbation-induced cellular dynamics by AlphaCell
Chuai et al. · bioRxiv · 2026-03-05
AlphaCell: genome-wide virtual-cell world model with OT conditional flow matching for cross-context perturbation dynamics.
Current landscape of single-cell genomics in meningioma.
Ellenbogen Y, Landry AP, Yefet LS, Ajisebutu A, Gui C, Persaud P, Kaloti R, Nassiri F. · Neuro-oncology advances · 2026-02-27
Review: current landscape of single-cell genomics in meningioma.
Foundation Model Based on Routine Magnetic Resonance Imaging for Brain Tumor Molecular Profiling and Progression Prediction.
Li J, Liu R, Xing Y, Gao X, Yin Q, Su Q. · JCO precision oncology · 2026-02-20
MRI foundation model for brain tumor molecular profiling and progression.
Scalable probe-based single-cell transcriptional profiling for virtual cell perturbation mapping and synthetic biology phenotyping
Swinderman JT et al. · bioRxiv · 2026-02-05
Probe-based scalable single-cell profiling for virtual-cell perturbation mapping.
CellFluxV2 : An Image Generative Foundation Model for Virtual Cell Modeling
Zhang Y, Su Y, Wefers Z, Su S, Li H, Li T, Wang C, Burgess J, Lozano A, Zhou L, Ding D, Nirschl J, Lundberg E, Yeung-Levy S. · bioRxiv · 2026-01-20
CellFluxV2: image generative foundation model for virtual cell modeling.
Anatomically aware simulation of patient-specific glioblastoma xenografts
Malik et al. · PLoS Comput Biol · 2026-01-20
Patient-specific GBM xenograft growth/invasion model on mouse brain anatomy; ABC fit; treatment via parameter perturbation.
Drug and single-cell gene expression integration identifies sensitive and resistant glioblastoma cell populations
Suter et al. · Nature Communications · 2026-01-07
scFOCAL/ISOSCELES links GBM cell states to L1000 signatures; predicts state-specific sensitivity and OLIG2i+Depatux-M combo.