#SingleCell preprints

Oncogenic PIK3CA mutations cause lineage-selective niche corruption #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.26.761693v1

Loss of SUR1 and Kir6.2 ATP-sensitive potassium channel subunits produces comparable neuronal excitability and morphine antinociception #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.27.761978v1

Cancer cells hijack mitochondria from Bhlhe40+ T cells for immune evasion #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.23.761277v1

Multi-scale spatial transcriptomic atlas of the whole mouse spinal cord #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.24.761397v1

High-resolution analysis of T cell subsets, clonality, and trajectories in psoriasis #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.23.761402v1

Therapeutic Targeting of the TGFβ Pathway Augments CAR T cell Efficacy in Glioblastoma #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.25.759450v1

A multiscale pharmacokinetic-Boolean modelling framework for ibrutinib resistance in a Chronic Lymphocytic Leukaemia case study #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.26.759125v1

Single-cell profiling quantifies the dose gap between population-average and complete pY-STAT1/3 suppression by JAK inhibitors #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.26.759076v1

Multiplex-GCN Predicts Clinically Actionable Tumor Microenvironment Subtypes in Pancreatic Cancer #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.22.761275v1

Glial cells gate small RNA transport from germline to brain during transgenerational epigenetic inheritance of behavior #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.24.761599v1

Multi-omic profiling and machine learning reveal diagnostic metabolic signatures and distinct decidual cellular states in tubal pregnancy and spontaneous abortion #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-11191056/latest

Lymphocyte Immunosuppression Transcriptomic Score and ICU-Acquired Infection in CAP-Induced Sepsis: A secondary analysis of public transcriptomic cohorts #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-11503611/latest

Single-cell RNA-seq of amniotic fluid provides unique insight into fetal development #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.26.762078v1

CAV1 and PECAM1 Mediate the Potential Association between Di(2-ethylhexyl) Phthalate Exposure and Lung Adenocarcinoma Immune Microenvironment Remodeling #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-11034260/latest

Soluble TREM2 suppresses neuronal activity #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-11388834/latest

Graph-structured joint-embedding prediction for single-cell transcriptomics #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2608.05928

MapPFN: Learning Causal Perturbation Maps in Context #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2601.21092

Building virtual cell dynamics that evolve with biological measurements #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.23.761350v1

STRAND: Sequence-Conditioned Transport for Single-Cell Perturbations #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2602.10156

scTREAT: Latent Diffusion for Single-Cell Drug-Response Prediction #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2510.11726

scPyviewer: a Python-native interactive viewer from AnnData single-cell data #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2610.35890

Integrative Single-Cell Transcriptomics and Explainable AI for Disease Mechanism and Biomarker Discovery in Triple-Negative Breast Cancer #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.23.761315v1

Dimensionality Reduction for Cyclic Compositional Data #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.22.761053v1

CATFISHR: integration of transcriptome and inferred CNV profiles for comprehensive malignant cell identification #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.22.760906v1

Stimulation strategy matters: A B-cell focused single-cell transcriptomic study on in vitro stimulated immune cells #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.22.760934v1

ProtCell: a foundation model for single-cell proteomics #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.22.760932v1

Vascular specification from diversified mesoderm culminates in endothelial convergence #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.25.761646v1

Identification of gene kinetics patterns improves RNA velocity and cell fate prediction using JuloVelo #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.24.761531v1

Regularized logistic regression-based gene selection for functional analysis of heterogeneous scRNA-seq macrophage populations in muscle aging and regeneration. #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.25.761682v1

Evaluation design shapes estimates of cross-donor generalization in single-cell classification of cell-type #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.26.761949v1

BLOOM: Biologically Informed Flow Matching for Transcriptomic Virtual Embryo Modeling #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.26.761895v1

Matrix stiffness shapes immunometabolic states and response to PD-1 blockade in gastric cancer #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.25.761609v1

Quantifying epigenetic reprogramming and cellular plasticity in preneoplastic lesions reveals dedifferentiation as a key precancer hallmark #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.25.761640v1

CEP-IP with CMRF in SEA-AD Microglia: A Mitochondrial Co-expression Module Linked to Cognition #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.22.761284v1

FluxSprout: Single-cell metabolic modeling of vascular sprouting in zebrafish #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.24.761567v1

Lost and found: beer belly is a novel, ancient regulator of animal development #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.10.24.761492v1

Compartment-specific transcriptional programs of the gravid human myometrium underlie labor and uterine atony #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-11225136/latest

Palmitoylation-associated molecular states implicate FNDC3B in tumor progression and macrophage-associated microenvironmental remodeling in pancreatic cancer #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-11101218/latest

An Ensemble Deep Learning Framework for Single-Cell Phenotypic Profiling of Escherichia coli under Antibiotic Stress #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-11132510/latest

Integrated single cell and bulk transcriptomic analysis reveals disulfidptosis related malignant epithelial states associated with prognosis in gastric cancer #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-10992120/latest

The ACVR1C-GAS6 Antagonistic Axis Drives Metabolic Decompensation and Liver Fibrosis in MASLD: Mechanistic Insights from Multi-omics Analyses #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-10938931/latest

Development of an Accelerated Stress Test Protocol for Rapid Catalyst Degradation Evaluation in Polymer Electrolyte Membrane Fuel Cell Stacks #SingleCell 🧪🧬🖥️ https://www.researchsquare.com/article/rs-11273460/latest

Shared clones make random cell halves look reproducible in pooled screens #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2610.32962

OmicsLM: A Multimodal Large Language Model for Multi-Sample Omics Reasoning #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2605.06728

Escaping cells dilute CRISPR screen responses unequally across cell types #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2610.35508

Multiscale Topology-Regulated Nonlinear Dynamics for Protein B-Factor Prediction and Single-Cell Type Classification #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2610.33727

Canonical residual physics-informed neural networks and algorithmic perturbation landscapes map cell-fate transitions in longitudinal H3K27M glioma #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2610.33000

An Exploratory Multiome Analysis of a BCG-Associated HSPC Signature: Trained-Immunity Marker in Blood and an Adverse Prognostic Association in Tumour #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2610.32999

Active Learning of Conditional Generative Models via the Transport Neural Tangent Kernel #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2610.35652

Rethinking Microscopy Generation: Co-Designed Diffusion for Biologically Interpretable Single-Cell Synthesis #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2610.33398