SeekSoul Online: A user-friendly bioinformatics platform focused on single-cell multi-omics analysis
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PUBLIC SUMMARY
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SeekSoul Online supports the complete analysis process for scRNA, scTCR/BCR, and SeekSpace data.
It provides a simple interface for manipulating, and visualising analysis to help users achieve efficient data analysis.
The platform significantly improves the accuracy of cell-type annotation by high-quality reference sets and AI.
It supports privilege management and multi-user collaborative analysis for cooperation and knowledge sharing.
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ABSTRACT
The rapid advancement of single-cell technologies has brought revolutionary progress in biology, medicine, and drug development. However, the sheer volume of data and the complexity of analysis methods often pose a significant challenge for researchers lacking programming skills. To address this problem, we developed SeekSoul Online (https://seeksoul.online/index.html#/login), a comprehensive platform for single-cell multi-omics data analysis and interactive visualisation that requires no programming foundation. Designed with a user-friendly interface, the platform combines modular architecture and powerful computational capabilities to support the complete analysis process of single-cell transcriptome, single-cell immune repertoire data, and SeekSpace single-cell spatial transcriptome data. The platform achieves accurate cell type identification through self-constructed high-quality reference sets and artificial intelligence technology. In addition, SeekSoul Online offers interactive data analysis and report generation, allowing users to adjust analysis parameters in real time and generate analysis reports for communication. The platform also provides comprehensive project management and sharing functions to facilitate collaboration and knowledge sharing among research teams. With automated data processing workflows and an intuitive user interface, SeekSoul Online significantly enhances the convenience and efficiency of data analysis, allowing researchers to focus more on scientific discovery and accelerating research progress. -
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REFERENCES
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Liu X., Wu C., Pan L., et al. (2025). SeekSoul Online: A user-friendly bioinformatics platform focused on single-cell multi-omics analysis. The Innovation Life 3:100156. https://doi.org/10.59717/j.xinn-life.2025.100156
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Liu X., Wu C., Pan L., et al. (2025). SeekSoul Online: A user-friendly bioinformatics platform focused on single-cell multi-omics analysis. The Innovation Life 3:100156. https://doi.org/10.59717/j.xinn-life.2025.100156
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Figure 1.
Workflow of one-step analysis for single-cell multi-omics data
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Figure 2.
SeekSoul Online consists of ten modules for single-cell multi-omics analysis.
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Figure 3.
Outputs from each analysis module underpinning single-cell multi-omics analysis on SeekSoul Online.
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Figure 4.
Higher-accuracy automated cell-type annotation using curated reference sets, with support for manual curation
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Figure 5.
Free configuration and consolidation of cell labels to improve single-cell analysis.
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Figure 6.
Oesophageal squamous cell carcinoma (ESCC) case study and spatial examples from SeekSpace data
