search_rna_studies
Search for RNA sequencing studies by disease, tissue, and organism to find relevant datasets across multiple species.
Instructions
Search for RNA sequencing studies by disease, tissue, and organism.
When to use this tool: Primary search tool for finding RNA-seq datasets when you know the disease/condition OR tissue/cell-type you're interested in. Use search_studies_by_keywords() for broader searches by biological processes or methodology.
Default behavior: Searches across ALL organisms unless you specify one. This helps find relevant datasets across multiple species (human, mouse, rat, etc.).
Search tips:
Try different keyword variations if no results (e.g., "ALS" vs "amyotrophic lateral sclerosis")
Try broader terms (e.g., "neurodegeneration" instead of specific disease)
Search all organisms first (organism=None), then filter to specific species if needed
Use tissue parameter to narrow results to specific anatomical sites
Returns
dict Search results containing: - count: How many total studies match your search - returned: How many studies are in this response - studies: List of matching studies with titles, sample counts, and publication info - query_used: The exact search query that was executed - filters: What filters were applied to your search
Input Schema
| Name | Required | Description | Default |
|---|---|---|---|
| disease | No | Disease/condition keywords to search for (e.g., 'cancer', 'ALS'). Matched against disease and study_title fields | |
| organism | No | Organism to search for. Use common names like 'human' or 'mouse', or scientific names like 'Homo sapiens'. Leave as None to search across all species | |
| technology | No | RNA sequencing technology type: 'bulk' for standard RNA-Seq, 'single-cell' for scRNA-seq, 'small-rna' for miRNA/small RNA, 'ribo-seq' for ribosome profiling, 'rna-all' for any RNA technology. Set to None to search ALL RNA technologies without filtering | |
| tissue | No | Tissue or cell type keywords to search for (e.g., 'brain', 'liver'). Matched against tissue_type and study_title fields | |
| library_strategies | No | Advanced: Specific sequencing strategies to filter by (e.g., ['RNA-Seq']). Overrides the technology preset. Call list_library_types() first to see all available options | |
| library_sources | No | Advanced: Specific library source materials to filter by (e.g., ['TRANSCRIPTOMIC']). Overrides the technology preset. Call list_library_types() first to see all available options | |
| limit | No | How many studies to return. Use 20 for initial searches, increase if needed. Set to 0 to get all results (up to system limits) |
Output Schema
| Name | Required | Description | Default |
|---|---|---|---|
No arguments | |||