RNA probing-reactivity prediction

Predict chemical probing reactivity.

Task definition

Input granularity: sequence
Biological target: SHAPE/DMS reactivity
Output representation: per-base continuous value
ML formulation: regression
Counting notes: NR

Benchmark coverage

5 benchmarks cover this task

B09Numeric results available

BEACON

Thirteen native tasks; some reuse OpenVaccine, Optimus and CRISPR datasets.

13 benchmark-wide protocols · 221 benchmark-wide rows (not a task subtotal)

B10Numeric results available

RNA-Scope

Board is public; DeepASmRNA and DeeReCT-PolyA/PAS are exposed as distinct tracks; verify exact release and frozen splits before comparative claims.

79 benchmark-wide protocols · 2,093 benchmark-wide rows (not a task subtotal)

B16Numeric results available

Ribonanza / Stanford Ribonanza RNA Folding

High-throughput DMS/2A3 reactivity prediction; leaderboard is archived.

18 benchmark-wide protocols · 36 benchmark-wide rows (not a task subtotal)

B33No public numeric result

OmniGenBench

Meta-suite packaging RGB, BEACON, GUE, Genomic Benchmarks and PGB; native_task_count=5 suites, not the sum of their downstream tasks.

0 benchmark-wide protocols · 0 benchmark-wide rows (not a task subtotal)

B38Numeric results available

EternaBench

Thirty-one chemical-mapping, riboswitch and external thermodynamic datasets; repository is archived but versioned and reproducible.

8 benchmark-wide protocols · 107 benchmark-wide rows (not a task subtotal)

Evaluation protocols

21 protocol units

Protocol	Track	Split / subset	Comparability
`PROT-B09-DMP-OFFICIAL-TRAIN-VALIDATION-TEST-SPLIT-DMP-C7DC49CC`	DMP B09-TR03	official train/validation/test split DMP	same_table_comparable external_data_policy;inference_budget
`PROT-B10-2A3-MAP-TESTS-MAE-9324F97A`	2A3-MaP B10-TR05	TestS MAE	official_board_comparable external_data_policy;inference_budget
`PROT-B10-2A3-MAP-TESTL-MAE-12D76964`	2A3-MaP B10-TR05	TestL MAE	official_board_comparable external_data_policy;inference_budget
`PROT-B16-RIBONANZA-BOARD-B78532572A08261C`	public leaderboard MAE B16-TR01	public leaderboard Ribonanza competition public test set	official_board_comparable inference_budget
`PROT-B16-RIBONANZA-BOARD-24ED65044B6346A4`	private leaderboard MAE B16-TR01	private leaderboard Ribonanza competition private test set	official_board_comparable inference_budget
`PROT-B16-RIBONANZA-POST-B0C0B4EE67324550`	public postcompetition \| Kaggle 3rd postcompetition \| ensemble 2 B16-TR01	public leaderboard test set evaluated postcompetition Ribonanza public test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-688320570C6DEF5D`	private postcompetition \| Kaggle 3rd postcompetition \| ensemble 2 B16-TR01	private leaderboard test set evaluated postcompetition Ribonanza private test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-6A23180B14B09278`	public postcompetition \| RibonanzaNet postcompetition \| ensemble 1 B16-TR01	public leaderboard test set evaluated postcompetition Ribonanza public test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-CF006C6F1911A6ED`	public postcompetition \| ArmNet with BPPM postcompetition \| ensemble 1 B16-TR01	public leaderboard test set evaluated postcompetition Ribonanza public test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-40E7BA9190155011`	public postcompetition \| ArmNet with BPPM postcompetition \| ensemble 3 B16-TR01	public leaderboard test set evaluated postcompetition Ribonanza public test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-CD7CA430DF431800`	public postcompetition \| ArmNet with BPPM postcompetition \| ensemble 5 B16-TR01	public leaderboard test set evaluated postcompetition Ribonanza public test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-881AAA860C94316C`	public postcompetition \| ArmNet with BPPM postcompetition \| ensemble 10 B16-TR01	public leaderboard test set evaluated postcompetition Ribonanza public test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-BE0FBFE2DE2F7DBB`	public postcompetition \| ArmNet with BPPM postcompetition \| ensemble 15 B16-TR01	public leaderboard test set evaluated postcompetition Ribonanza public test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-A6654C2D26CCA248`	public postcompetition \| blend of Kaggle 1st 2nd 3rd \| ensemble 39 B16-TR01	public leaderboard test set evaluated postcompetition Ribonanza public test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-21F9D2D67E234AD7`	private postcompetition \| RibonanzaNet postcompetition \| ensemble 1 B16-TR01	private leaderboard test set evaluated postcompetition Ribonanza private test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-C89E47BA92F91139`	private postcompetition \| ArmNet with BPPM postcompetition \| ensemble 1 B16-TR01	private leaderboard test set evaluated postcompetition Ribonanza private test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-74172B049086D127`	private postcompetition \| ArmNet with BPPM postcompetition \| ensemble 3 B16-TR01	private leaderboard test set evaluated postcompetition Ribonanza private test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-73BA3064954EE447`	private postcompetition \| ArmNet with BPPM postcompetition \| ensemble 5 B16-TR01	private leaderboard test set evaluated postcompetition Ribonanza private test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-3042C4735677BF2E`	private postcompetition \| ArmNet with BPPM postcompetition \| ensemble 10 B16-TR01	private leaderboard test set evaluated postcompetition Ribonanza private test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-BD0DAAA2E58ED610`	private postcompetition \| ArmNet with BPPM postcompetition \| ensemble 15 B16-TR01	private leaderboard test set evaluated postcompetition Ribonanza private test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details
`PROT-B16-RIBONANZA-POST-3C6837627A25DDE5`	private postcompetition \| blend of Kaggle 1st 2nd 3rd \| ensemble 39 B16-TR01	private leaderboard test set evaluated postcompetition Ribonanza private test set	insufficient_protocol_detail external_data_policy;inference_budget;postcompetition model-selection details