Squidiff: predicting cellular development and responses to perturbations using a diffusion model

High-Resolution Image Synthesis with Latent Diffusion Models

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Denoising Diffusion Probabilistic Models

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Natural products in drug discovery: advances and opportunities

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Performance of neural network basecalling tools for Oxford Nanopore sequencing

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Denoising Diffusion Implicit Models

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PHD1 controls muscle mTORC1 in a hydroxylation-independent manner by stabilizing leucyl tRNA synthetase

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Diffusion Models: A Comprehensive Survey of Methods and Applications

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PAGA: graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells

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Nanog safeguards pluripotency and mediates germline development

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Recent Advances in Natural Language Processing via Large Pre-trained Language Models: A Survey

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Engineering organoids

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Splatter: simulation of single-cell RNA sequencing data

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Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species

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scGen predicts single-cell perturbation responses

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Vascular heterogeneity and specialization in development and disease

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Space Radiation: The number one risk to astronaut health beyond low earth orbit

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How to build the virtual cell with artificial intelligence: Priorities and opportunities

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Exploring genetic interaction manifolds constructed from rich single-cell phenotypes

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Predicting transcriptional outcomes of novel multigene perturbations with GEARS

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Major Radiation Exposure — What to Expect and How to Respond

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Diffusion Autoencoders: Toward a Meaningful and Decodable Representation

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Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression

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AUC Maximization in the Era of Big Data and AI: A Survey

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Design of target specific peptide inhibitors using generative deep learning and molecular dynamics simulations

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The scverse project provides a computational ecosystem for single-cell omics data analysis

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Organoids: The current status and biomedical applications

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The Role of MDM2 Amplification and Overexpression in Tumorigenesis

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SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function

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GATA6 Levels Modulate Primitive Endoderm Cell Fate Choice and Timing in the Mouse Blastocyst

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Granulocyte-Macrophage Colony-Stimulating Factor: Pleiotropic Cytokine with Potential Clinical Usefulness

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Apollo Lunar Astronauts Show Higher Cardiovascular Disease Mortality: Possible Deep Space Radiation Effects on the Vascular Endothelium

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Protein structure generation via folding diffusion

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Learning single-cell perturbation responses using neural optimal transport

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Mechanisms of radiation-induced endothelium damage: Emerging models and technologies

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Simple and effective embedding model for single-cell biology built from ChatGPT

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Diffusion models in bioinformatics and computational biology

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SCORPIUS improves trajectory inference and identifies novel modules in dendritic cell developmentPreprint

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New challenges in high-energy particle radiobiology

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Concepts and challenges in cancer risk prediction for the space radiation environment

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Expression of T Protein in the Primitive Streak Is Necessary and Sufficient for Posterior Mesoderm Movement and Somite Differentiation

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Establishing a conceptual framework for holistic cell states and state transitions

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Deconvolution of cell type-specific drug responses in human tumor tissue with single-cell RNA-seq

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Predicting transcriptional responses to novel chemical perturbations using deep generative model for drug discovery

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Fate and state transitions during human blood vessel organoid development

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The granulocyte colony-stimulating factor (G-CSF) upregulates metalloproteinase-2 and VEGF through PI3K/Akt and Erk1/2 activation in human trophoblast Swan 71 cells

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scDiffusion: conditional generation of high-quality single-cell data using diffusion model

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Generative modeling of single-cell gene expression for dose-dependent chemical perturbations

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Accelerator-Based Biological Irradiation Facility Simulating Neutron Exposure from an Improvised Nuclear Device

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A Review of Radiation-Induced Vascular Injury and Clinical Impact

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Modeling the Effects of Protracted Cosmic Radiation in a Human Organ‐on‐Chip Platform

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Broad energy range neutron spectroscopy using a liquid scintillator and a proportional counter: Application to a neutron spectrum similar to that from an improvised nuclear device

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Fate and state transitions during human blood vessel organoid developmentPreprint

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GenePert: Leveraging GenePT Embeddings for Gene Perturbation PredictionPreprint

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Generation of Human Blood Vessel Organoids from Pluripotent Stem Cells

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Stem Cell Factor in Combination with Granulocyte Colony-Stimulating Factor reduces Cerebral Capillary Thrombosis in a Mouse Model of CADASIL

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scVAEDer: integrating deep diffusion models and variational autoencoders for single-cell transcriptomics analysis

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Effects of Acute and Chronic Exposure to a Mixed Field of Neutrons and Photons and Single or Fractionated Simulated Galactic Cosmic Ray Exposure on Behavioral and Cognitive Performance in Mice

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A General Single-Cell Analysis Framework via Conditional Diffusion Generative ModelsPreprint

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Deciphering the impact of aging on splenic endothelial cell heterogeneity and immunosenescence through single-cell RNA sequencing analysis

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Organoid Technology for Disease Modelling and Personalized Treatment

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Squidiff

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Squidiff: Predicting cellular development and responses to perturbations using a diffusion model

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A Systematic Comparison of Single-Cell Perturbation Response Prediction Models

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Benchmarking AI Models for <i>In Silico</i> Gene Perturbation of Cells

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Artificial Intelligence Virtual Organoids (AIVOs)

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Interpretation, extrapolation and perturbation of single cells

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From Algorithms to Assets: A Comprehensive Review of AI’s Role in Preclinical Drug Discovery and the Hurdles to Clinical Translation

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Artificial intelligence in precision mRNA therapeutics: Towards genomic language models and multi-agent virtual humans

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Advancing multiscale vascular engineering for regeneration and transplantation

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AI-Designed Peptides as Tools for Biochemistry

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Conditional Monge Gap enables generalizable single-cell perturbation modelling

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SPSID: A Single-Parameter Shrinkage Inverse-Diffusion for Denoising Gene-Regulatory Networks

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Language may be all omics needs: Harmonizing multimodal data for omics understanding with CellHermesPreprint

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Artificial intelligence in radiobiology: Bridging mechanisms and data analysis

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AI for science: Progress, challenges, and perspectives

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AI-driven deciphering of cell niches with single-cell and spatial omics: a new perspective for traditional Chinese medicine research

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Counterfactual Diffusion Modeling Enables Spatially Targeted Reprogramming of Tissue Microenvironments

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Artificial intelligence derived virtual oncology

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Self-evolving artificial intelligence virtual cells: A closed-loop system from multi-scale modeling to biomedical applications

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Multi‐omics–driven precision medicine

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pertTF: context-aware AI modeling for genome-scale and cross-system perturbation predictionPreprint

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MVCBench: A Multimodal Benchmark for Drug-induced Virtual Cell PhenotypesPreprint

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