AI for RNAtalk - RNA Centered Interactome & Virtual Cell (AIVC)

RNA Centered Interactome (RNAtalk) in Brain

Roadmap of AI
- 👍 2025 Nature Reviews - Decoding the interactions and functions of non-coding RNA with artificial intelligence
Data for AI: Seq-tech
- 👍 VASA-seq 2022 NBT - High-throughput total RNA sequencing in single cells using VASA-seq
- DETECTOR-seq 2024 Clin. & Trans. Med. - Depletion-assisted multiplexed cell-free RNA sequencing reveals distinct human and microbial signatures in plasma versus extracellular vesicles [Lu Lab Paper]
- 👍 MUSIC 2024 Nature - Single-cell multiplex chromatin and RNA interactions in ageing human brain
- RIC-seq 2020 Nature - RIC-seq for global in situ profiling of RNA–RNA spatial interactions

MultiOmics Methods
- 2024 Nature Methods - Benchmarking algorithms for single-cell multi-omics prediction and integration
- 2023 Nature Methods - SCENIC+: single-cell multiomic inference of enhancers and gene regulatory networks
Foundation Models
- 2025 Nature Methods - EpiAgent: foundation model for single-cell epigenomics
- 2024 Nature Methods - Large-scale foundation model on single-cell transcriptomics
AIVC studies
- 2026 bioRxiv - Unified modeling of cellular responses to diverse perturbation types
- 2026 Nature Comp. Sci. - Partially shared multi-modal embedding learns holistic representation of cell state
- Read more about Digital Twin for Medicine

MultiOmics Analysis Examples:

Chinese Immune Multi-Omics Atlas

Science 2026

2025 Nature biotechnology - A resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function
2015 Nature Biotech. - DeepBind: Predicting the sequence specificities of DNA- and RNA-binding proteins by deep learning
POSTAR3 - NAR 2022 [Lu Lab Paper]
RBPgroup - Genome Biology 2017 [Lu Lab Paper]