LOSTdb: a manually curated multi-omics database for lung cancer research
LOSTdb comprises 295 multi-omics datasets, including bulk RNA-seq, genomic, proteomic, methylation, and scRNA-seq data, with over 10,000 manually curated metadata entries. Each omics sample was annotated with both literature-based classical subtypes and NMF-derived meta-program (MP) subtypes. It offers 14 visualization and analysis methods, along with 5 tool modules.
- Multi-Omics Data Integration: Explore genomic, transcriptomic(Bulk, Single-cell), proteomic, and epigenomic data
- Sample: Sample types (LUAD, LUSC, and SCLC); sample sources (clinical samples, mouse models, and cell lines)
- Interactive Visualizations: Dynamic charts and tables for data exploration
- Molecular subtype annotations: Literature-based classical subtypes and NMF-derived meta-program (MP) subtypes
- Tools Analysis: Integrated analysis, Metadata analysis, Gene-Metadata analysis, Target and drug analysis
- RNA.R: Script containing RNA-seq analysis functions
- Proteomics.R: Script containing proteomics analysis functions
- 🧬Mutation.R: Script containing genomics analysis functions
- Methylation.R: Script containing methylation analysis functions
- scRNA.R: Script containing scRNA-seq analysis functions
- 🏥Sigclin.R: Script for significance analysis between clinical/meta data.
- 🎯Target.R: Script for target scoring.
- datasets.xlsx: Dataset information in LOSTdb.
- subtypes.xlsx: Detailed information of molecular subtypes, including classical subtypes and multi-omics meta-program (MP) subtypes.
- clinical-metadata.xlsx: Manually curated clinical/meta data.
