Model type
Study-specific predictive method; this record is the paper-specific evaluated configuration.
Pipeline
CUPID Data-aug-Avg
CUPID predicts pairwise interactions between non-coding RNAs from their sequences.
Sources
Computational understanding of non-coding RNA pairwise interactions · Abstract (paragraph 1); Methods/Negative examples generation (paragraph 1)How it worksEvaluated procedure (conceptual)
Conceptual input–method–output guide. Check the procedure text and linked evaluation for fitted components, additional inputs and exact settings.
Sources
Computational understanding of non-coding RNA pairwise interactions · Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1)At a glance
Biological inputs
Pairs of non-coding RNA sequences
Sources
Computational understanding of non-coding RNA pairwise interactions · Methods/Negative examples generation (paragraph 4); Methods/Dataset (paragraph 1)Outputs
Predicted ncRNA–ncRNA interaction labels or scores
Sources
Computational understanding of non-coding RNA pairwise interactions · Methods/Dataset (paragraph 8); Methods/Dataset (paragraph 1)limited source coverage · Automated source review, 2026-09-16. All specifications and missing details
Evaluations and results
Release 2026-09-17-d277315f7d76 · 1 evaluation · 1 metric row. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| CUPID Data-aug-Avg: non-coding RNA pairwise interaction prediction Pipeline: CUPID Data-aug-AvgTask: non-coding RNA pairwise interaction predictionDataset: ncRNA interaction pairs Data augmentation with average pooling for molecule-level ncRNA embeddings Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.919 AUROC Unit: fraction · Direction: unknown | Uncertainty: not reported in legacy extract Scored: Not reported · Eligible: Not reported | source checkedComputational understanding of non-coding RNA pairwise interactions · Table 1, CUPID > Data-aug-Avg row, AUROC column Source checking is not independent reproduction. |
How it works
How the evaluated method works
GenerRNA sequence embeddings feed a feed-forward interaction classifier. The Data-aug-Avg configuration uses the paper’s augmented training pairs and averaging variant.
Sources
Computational understanding of non-coding RNA pairwise interactions · Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1)What was evaluated
The linked evaluation record identifies CUPID Data-aug-Avg: non-coding RNA pairwise interaction prediction. Its dataset, split, adaptation and evidence origin remain attached to the reported results.
Sources
Computational understanding of non-coding RNA pairwise interactions · The named evaluation’s methods and comparison table; exact preserved evaluation IDs: evaluation-lit-b4-007Strengths and limitations
Strengths and considerations
- Uses sequence representations across several ncRNA interaction types without requiring explicit thermodynamic folding features.
Sources
Computational understanding of non-coding RNA pairwise interactions · Methods/Dataset (paragraph 8); Discussion (paragraph 1)
Limitations and conditions
- RNA pairs exceeding the study’s length filter are excluded; this restricts the distribution on which the reported result is established.
Sources
Computational understanding of non-coding RNA pairwise interactions · Methods/Dataset (paragraph 5); Methods/Dataset (paragraph 4)
Profile review details
Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction.
Stable record: reported-model-2894d253c5e8a8Specifications
Inputs, training, access and other details
Explanatory profile: limited source coverage · Automated source review, 2026-09-16. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.
| Property | Description and evidence |
|---|---|
| Model type | Study-specific predictive method; this record is the paper-specific evaluated configuration.SourcesComputational understanding of non-coding RNA pairwise interactions · Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1) |
| Architecture / procedure | GenerRNA sequence embeddings feed a feed-forward interaction classifier. The Data-aug-Avg configuration uses the paper’s augmented training pairs and averaging variant.SourcesComputational understanding of non-coding RNA pairwise interactions · Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1) |
| Biological inputs | Pairs of non-coding RNA sequencesSourcesComputational understanding of non-coding RNA pairwise interactions · Methods/Negative examples generation (paragraph 4); Methods/Dataset (paragraph 1) |
| Outputs | Predicted ncRNA–ncRNA interaction labels or scoresSourcesComputational understanding of non-coding RNA pairwise interactions · Methods/Dataset (paragraph 8); Methods/Dataset (paragraph 1) |
| Parameters | An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. · Not reported in inspected sourcesSources (2)Computational understanding of non-coding RNA pairwise interactions; AnacletoLAB/ncRNA-CUPID README.md · Methods/Dataset; Methods/Data augmentation; Methods/Negative examples generation; Methods/Model architecture/The overall CUPID architecture; Methods/Model architecture/Pooling techniques; Methods/Model architecture/The classification unit; Methods/Model architecture/Mini-batch balancing; Methods/Experimental evaluation/Data preparation and splitting; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision |
| Known versions / configuration | CUPID Data-aug-Avg is the comparison-table label; that label does not specify an immutable weight revision. · Not reported in inspected sourcesSourcesComputational understanding of non-coding RNA pairwise interactions · Model identification in the comparison table and corresponding Methods; immutable checkpoint revision is not supplied by the table label. |
| Training data / fitting | The study’s filtered ncRNA-interaction dataset; augmentation produces four training instances per original pair.SourcesComputational understanding of non-coding RNA pairwise interactions · Methods/Dataset (paragraph 1); Methods/Dataset (paragraph 8) |
| Context limits | Input filtering is tied to GenerRNA token capacity; the paper describes approximately 4,096 nucleotides, with BPE compression affecting the correspondence.SourcesComputational understanding of non-coding RNA pairwise interactions · Methods/Dataset (paragraph 4); Methods/Model architecture/The overall CUPID architecture (paragraph 2) |
| Access | Official study implementation and usage documentation: https://github.com/AnacletoLAB/ncRNA-CUPID/blob/f663c10d2f6c33f8513614badbbc673e654a64d8/README.md. This pinned documentation revision is not automatically the evaluated weight revision.SourcesAnacletoLAB/ncRNA-CUPID README.md · README.md; installation, model download and usage instructions |
| Code licence | Apache 2.0 (study repository code at the cited revision; this does not establish every dependency or historical checkpoint licence).SourcesAnacletoLAB/ncRNA-CUPID LICENSE.txt · LICENSE.txt; complete licence text |
| Weights licence | The inspected model-access documentation does not explicitly identify terms for this exact evaluated checkpoint or fitted head; repository code terms are shown separately. · Not reported in inspected sourcesSourcesAnacletoLAB/ncRNA-CUPID README.md · README.md; checkpoint/access documentation and licence scope |
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
20 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Diagram caption Conceptual input–method–output guide. Check the procedure text and linked evaluation for fitted components, additional inputs and exact settings. Individual claims | Computational understanding of non-coding RNA pairwise interactions Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1) Version: PMC archival version PMC12957212.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram steps ["Pairs of non-coding RNA sequences","CUPID Data-aug-Avg","Predicted ncRNA–ncRNA interaction labels or scores"] Individual claims | Computational understanding of non-coding RNA pairwise interactions Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1) Version: PMC archival version PMC12957212.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram title Evaluated procedure (conceptual) Individual claims | Computational understanding of non-coding RNA pairwise interactions Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1) Version: PMC archival version PMC12957212.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Model type Study-specific predictive method; this record is the paper-specific evaluated configuration. Individual claims | Computational understanding of non-coding RNA pairwise interactions Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1) Version: PMC archival version PMC12957212.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Architecture / procedure GenerRNA sequence embeddings feed a feed-forward interaction classifier. The Data-aug-Avg configuration uses the paper’s augmented training pairs and averaging variant. Individual claims | Computational understanding of non-coding RNA pairwise interactions Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1) Version: PMC archival version PMC12957212.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Weights licence The inspected model-access documentation does not explicitly identify terms for this exact evaluated checkpoint or fitted head; repository code terms are shown separately. Individual claims | AnacletoLAB/ncRNA-CUPID README.md README.md; checkpoint/access documentation and licence scope Version: f663c10d2f6c33f8513614badbbc673e654a64d8 | unreported automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Biological inputs Pairs of non-coding RNA sequences Individual claims | Computational understanding of non-coding RNA pairwise interactions Methods/Negative examples generation (paragraph 4); Methods/Dataset (paragraph 1) Version: PMC archival version PMC12957212.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Outputs Predicted ncRNA–ncRNA interaction labels or scores Individual claims | Computational understanding of non-coding RNA pairwise interactions Methods/Dataset (paragraph 8); Methods/Dataset (paragraph 1) Version: PMC archival version PMC12957212.1 | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Parameters An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. Individual claims | Computational understanding of non-coding RNA pairwise interactions Methods/Dataset; Methods/Data augmentation; Methods/Negative examples generation; Methods/Model architecture/The overall CUPID architecture; Methods/Model architecture/Pooling techniques; Methods/Model architecture/The classification unit; Methods/Model architecture/Mini-batch balancing; Methods/Experimental evaluation/Data preparation and splitting; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC archival version PMC12957212.1 | unreported automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Parameters An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. Individual claims | AnacletoLAB/ncRNA-CUPID README.md Methods/Dataset; Methods/Data augmentation; Methods/Negative examples generation; Methods/Model architecture/The overall CUPID architecture; Methods/Model architecture/Pooling techniques; Methods/Model architecture/The classification unit; Methods/Model architecture/Mini-batch balancing; Methods/Experimental evaluation/Data preparation and splitting; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: f663c10d2f6c33f8513614badbbc673e654a64d8 | unreported automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
Release 2026-09-17-d277315f7d76 · Record review: needs review
3 source records and release history
- Computational understanding of non-coding RNA pairwise interactions · Original source · PMC archival version PMC12957212.1
- AnacletoLAB/ncRNA-CUPID README.md · Original source · f663c10d2f6c33f8513614badbbc673e654a64d8
- AnacletoLAB/ncRNA-CUPID LICENSE.txt · Original source · f663c10d2f6c33f8513614badbbc673e654a64d8
Technical metadata and extraction receipts
Stable ID: reported-model-2894d253c5e8a8
- areas
- rna-transcriptomes
- entity level
- method
- version
- Not reported
- reported name
- CUPID Data-aug-Avg
- historical missing metadata
- version: not_reported_in_legacy_extract; checkpoint revision: not_reported_in_legacy_extract; training data: not_reported_in_legacy_extract; licence: not_reported_in_legacy_extract
- metadata review scope
- historical_missing_metadata preserves the original discovery state. Current descriptive evidence and missingness are recorded in profile.facts; numerical-result review is separate.
- legacy kinds
- model
- entity classification
- review date: 2026-09-17; rationale: This record identifies a composed analysis workflow with separately identifiable upstream models, representations or tools and a downstream prediction/scoring procedure. Results belong to that complete composition rather than to an upstream model alone.; source ids: cupid-rna-interactions-2026; source locator: Methods/Model architecture/The classification unit (paragraph 1); Methods/Model architecture/The overall CUPID architecture (paragraph 1) | Abstract (paragraph 1); Methods/Negative examples generation (paragraph 1); ambiguities: This is the paper-specific pipeline identity; unspecified component checkpoints or implementation versions are not inferred from its name.