RNA–RNA Interactions Benchmark
Manually confirmed interaction regions across archaea, bacteria and eukaryotes; the repository moved from UCanCompBio to Gardner-BinfLab.
7 benchmark-wide protocols · 84 benchmark-wide rows (not a task subtotal)D5 · Interaction & complexes
RNA–RNA interaction prediction
Predict intermolecular RNA pairing or interaction.
Task definition
- Input granularity
- two sequences
- Biological target
- hybridization/interaction
- Output representation
- pairing or interaction score
- ML formulation
- structured prediction/classification
- Counting notes
- NR
Benchmark coverage
1 benchmarks cover this task
Evaluation protocols
7 protocol units
| Protocol | Track | Split / subset | Comparability |
|---|---|---|---|
PROT-B40-DIRECT-INTERACTION-REGION-PREDICTIO-B4E28160-39378203 | direct interaction-region prediction B40-TR01 | selected files (n=50) runtime on selected files (n=50) | same_table_comparable external_data_policy;inference_budget |
PROT-B40-DIRECT-INTERACTION-REGION-PREDICTIO-F1B74152-6E02D1B6 | direct interaction-region prediction B40-TR01 | selected files (n=50) sensitivity | same_table_comparable external_data_policy;inference_budget |
PROT-B40-DIRECT-INTERACTION-REGION-PREDICTIO-A4BB7852-0FA5E783 | direct interaction-region prediction B40-TR01 | selected files (n=50) precision | same_table_comparable external_data_policy;inference_budget |
PROT-B40-DIRECT-INTERACTION-REGION-PREDICTIO-55F0ED21-9AAF9408 | direct interaction-region prediction B40-TR01 | selected files (n=50) MCC | same_table_comparable external_data_policy;inference_budget |
PROT-B40-NATIVE-INTERACTION-RANKING-60-INTER-1F729603-D33EF50E | native-interaction ranking B40-TR01 | 60 interactions Total # of significant (P < 0.05) correct predictions for Gumbel dist. (n = 60) | same_table_comparable external_data_policy;inference_budget |
PROT-B40-NATIVE-INTERACTION-RANKING-60-INTER-836FCA3E-7B1CA897 | native-interaction ranking B40-TR01 | 60 interactions Total # of significant (P < 0.05) correct predictions for normal dist. (n = 60) | same_table_comparable external_data_policy;inference_budget |
PROT-B40-NATIVE-INTERACTION-RANKING-60-INTER-EAEA3385-5939C767 | native-interaction ranking B40-TR01 | 60 interactions Median rank of native interactions | same_table_comparable external_data_policy;inference_budget |