Article

Nephrobase Cell+: Multimodal Single-Cell Foundation Model for Decoding Kidney Biology

2025-10-01

Abstract excerpt

<h4>Background</h4> Large foundation models have revolutionized single-cell analysis, yet no kidney-specific model currently exists, and it remains unclear whether organ-focused models can outperform generalized models. The kidney’s complex cellular architecture and dynamic microenvironments further complicate integration of large-scale single-cell and spatial omics data, where current frameworks trained on limit...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 25784dfd-6f11-5cec-ba73-d38e15979a4c
DOI: 10.1101/2025.09.30.679471

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Nephrobase Cell+: Multimodal Single-Cell Foundation Model for Decoding Kidney BiologyDOI 10.1101/2025.09.30.679471Read

Systematic evaluation of single-cell multimodal data integration enhances cell type resolution and discovery of clinically relevant states in complex tissuesSemantic proximity Read

HoloCell: A Generative Foundation Model for Holistic Cellular ModelingSemantic proximity Read

scBERT as a Large-scale Pretrained Deep Language Model for Cell Type Annotation of Single-cell RNA-seq DataSemantic proximity Read

Organism-scale annotation with Pan-human AzimuthSemantic proximity Read

Self-distillation contrastive learning enables clustering-free signature extraction and mapping to multimodal single-cell atlas of multimillion scaleSemantic proximity Read

An Integrated Atlas of the Human Kidney Spanning Health and DiseasesSemantic proximity Read

Parameter-free representations outperform single-cell foundation models on downstream benchmarksSemantic proximity Read

Species-specific small models for cell type classification approach the performance of large single cell foundation modelsSemantic proximity Read

scoMorphoFISH: A Deep-Learning enabled toolbox for single-cell single-mRNA quantification and correlative (ultra-)morphometrySemantic proximity Read

UniCell: Towards a Unified Solution for Cell Annotation, Nomenclature Harmonization, Atlas Construction in Single-Cell TranscriptomicsSemantic proximity Read

CellFM: a large-scale foundation model pre-trained on transcriptomics of 100 million human cellsSemantic proximity Read

RegFormer: A Single-Cell Foundation Model Powered by Gene Regulatory HierarchiesSemantic proximity Read