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LncACTdb 4.0

An updated resource of experimentally supported ceRNA interactions and multi-level regulatory networks curated from bulk tissues, cell lines, organoids and single-cell transcriptomes for precision oncology.

Browse Help LncACTdb 3.0

What's new in LncACTdb 4.0

  • Newly curated 15,008 high-confidence ceRNA–disease associations and 18,974 biomarkers for robust ceRNA translational research.
  • Newly integrated 60,000+ clinical individuals and ~600,000 single cells across human and mouse tissues & diverse diseases.
  • Novel multi-layer ceRNA profiling covering bulk tissue, cell line, organoid and single-cell transcriptomic landscapes.
  • Advanced single-sample and single-cell analytical tools enable precise decoding of complex ceRNA regulatory mechanisms.
  • Enhanced analytical performance and optimized visualization pipelines streamline comprehensive ceRNA omics analysis.
Enter the lncRNA and mRNA separated by / — e.g. MALAT1 / WSB1.
ceRNA Gene
ceRNA Interaction
Validated ceRNA
Validated Biomarker
Disease & Phenotype
Tissue
Species

Analysis tools

A full panel of 12 upgraded tools for multi-scale ceRNA analysis: clinical features, biological functions and single-cell heterogeneity.

ceRNA ceExpression ceRNA expression Profiling ceRNA expression and correlation landscapes across individuals. Open ceRNA ceClinic Clinical association Profiling ceRNA expression changes across stratified clinical individuals. Open ceRNA ceFunction Functional score Bridging ceRNA expression and functional omics across individuals. Open ceRNA ceFuncCompare Pathway compare Comparing functional signatures across multi-context biological profiles. Open ceRNA ceSpecific Interaction detection Evaluating ceRNA interaction specificity across tissues, cell lines, organoids and single-cell transcriptomes. Open ceRNA ceDataNet Data network Constructing multi-scale ceRNA regulatory networks from bulk to single-cell resolution. Open ceRNA ceSampleNet Sample network Constructing sample-level ceRNA networks for tumor heterogeneity analysis. Open ceRNA ceSurvival Survival analysis Linking ceRNA axes to clinical outcomes via large-scale survival analysis. Open Single-cell scCluster Cell clustering Clustering single cells and quantifies ceRNA counts in TME. Open Single-cell scTraject Trajectory Tracing cell trajectories via four classic algorithms. Open Single-cell scCeExp Cell expression Profiling ceRNA expression patterns at single-cell level. Open Single-cell scState Cell state Profiling diverse dynamic single-cell states precisely. Open

Multi-omics datasets

LncACTdb 4.0: from bulk to single-cell, upgraded toolkit — multi-resolution ceRNA insights for precision oncology.

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ceRNA interactions identified across multi-level transcriptomic datasets.

0high-confidence ceRNAs
0validated biomarkers
0clinical individuals
0single cells
0tissues
0enhanced analysis tools
Browse the full catalogue
Multi-Scale ceRNA Transcriptomic Landscapes
Tissue level

221 datasets / 56,369 samples

Tissue-derived bulk profiles, annotated with clinical and pathological hallmarks.

Single-Cell level

129 datasets / 579,857 cells

Single-cell specific networks dissect heterogeneous tumor microenvironment regulation.

Cell Line level

62 datasets / 3,564 samples

Diverse in-vitro models mirroring pathological states, therapeutic interventions and perturbations.

Organoid level

35 datasets / 491 samples

3D cultures faithfully recapitulating in-vivo biology and disease progression.

LncACTdb 4.0 | Our works

2026
LncACTdb 4.0
447 Datasets 7.1M ceRNA Pairs

Experimentally supported ceRNA interactions and multi-level regulatory networks for precision oncology.

2022
LncACTdb 3.0
62 Datasets 5,669 ceRNAs 10K Biomarkers

Experimentally supported interactions among ceRNA and the corresponding personalized networks contributing to precision medicine. (Nucleic Acids Research)

2025
LnCeCell 2.0
257 Datasets 1.37M+ Cells

LncRNA-associated ceRNA networks based on single-cell and spatial transcriptomics sequencing data. (Nucleic Acids Research)

2025
LnCeVar 2.0
243 Datasets 5.21M ceRNA-SNV events

Genomic variations disrupting ceRNA networks from single-cell / spatial transcriptomics data. (Nucleic Acids Research)

2022
CellTracer
222 Datasets 941,552 cells

Dissect the causative multilevel interplay contributing to cell development trajectories. (Nucleic Acids Research)

LncACTdb 4.0 | Update

Return to LncACTdb 3.0
Metricv3.0v4.0Gain
Experimentally validated · manually curated from literature
Experimental Validation ceRNA 5,66915,008 2.65×
lncRNAs 9132,223 2.44×
circRNAs 3372,402 7.13×
miRNAs 1,0482,314 2.21×
Target genes 1,7234,021 2.33×
Pseudogenes 1951 2.68×
Species 25106 4.24×
lncRNA biomarkers 10,08418,974 1.88×
Computational ceRNA atlas · expression datasets
Curated datasets 62447 7.21×
Dataset level 14 NEW
Single cells profiled 0579,857 NEW
Organoid datasets 035 NEW
ceRNA interactions 2,320,0827.1M 3.07×
Cite us
Nucleic Acids Research · 2026 Advance article · PMID 42929183

LncACTdb 4.0: an updated resource of experimentally supported ceRNA interactions and multi-level regulatory networks for precision oncology

Guo Q, Liu Q, He Y, Zhang X, Xu Z, Sun R, Wang B, Shan X, Xu B, Gao Y, Ning S, Zhi H, Wang P. Nucleic Acids Res. 2026. doi:10.1093/nar/gkag1030

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