bio-small-rna-seq-target-prediction
Predict miRNA target genes using sequence-based algorithms and database lookups. Use when identifying potential mRNA targets of differentially expressed or functionally important miRNAs.
npx skills add BioTender-max/awesome-bio-agent-skills --skill target-prediction --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
## Version Compatibility Reference examples tested with: BioPython 1.83+, pandas 2.2+ Before using code patterns, verify installed versions match. If versions differ: - Python: `pip show <package>` then `help(module.function)` to check signatures - CLI: `<tool> --version` then `<tool> --help` to confirm flags If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. # miRNA Target Prediction **"Predict target genes for my miRNAs"** → Identify potential mRNA targets of miRNAs using sequence-based thermodynamic alignment and database lookups from validated interaction repositories. - CLI: `miranda miRNA.fa UTR.fa -sc 140 -en -20` for de novo prediction - Python: API queries to miRTarBase, TargetScan for validated targets ## miRanda Algorithm **Goal:** Predict miRNA-mRNA target interactions using thermodynamic alignment scoring. **Approach:** Run miRanda to align miRNA sequences against 3' UTR sequences with minimum score and energy thresholds. ```bash # Run miRanda for target prediction miranda miRNA.fa UTRs.fa \ -sc 140 \ -en -20 \ -out predictions.txt # Options: # -sc 140: Minimum a
- Version Compatibility
- miRanda Algorithm
- Parse miRanda Output
- TargetScan Database Lookup
- miRDB Database Lookup
- Combine Multiple Databases
- Python miRNA Target Prediction
- Seed Match Analysis
- Functional Enrichment of Targets
- Related Skills
Run miRanda for target prediction miranda miRNA.fa UTRs.fa \ Higher score and lower energy = stronger prediction
What does the bio-small-rna-seq-target-prediction skill do?
Predict miRNA target genes using sequence-based algorithms and database lookups. Use when identifying potential mRNA targets of differentially expressed or functionally important miRNAs.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill target-prediction --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.