Evaluation

Word2vec + TextCNN + MLP: Human RNA 2OMe sites, five-fold cross-validation

41-nt centred RNA windows; balanced 8,037 positive and 8,037 negative samples after 80% identity filtering, then 8:2 train/test division. Average of five validation folds of the training set.

Evaluation procedure

41-nt centred RNA windows; balanced 8,037 positive and 8,037 negative samples after 80% identity filtering, then 8:2 train/test division. Average of five validation folds of the training set.

Configuration: Word2vec + TextCNN + MLP
Protocol: Human RNA 2OMe sites, five-fold cross-validation (human RNA 2-prime-O-methylation site prediction)
Dataset: human RNA 2OMe sites

origin: Author-reported evaluation
configuration: Paper-specific predictor; checkpoint not specified
protocol id: paper-protocol-1e891689a18fea3b65
dataset version: Not reported
split: 41-nt centred RNA windows; balanced 8,037 positive and 8,037 negative samples after 80% identity filtering, then 8:2 train/test division. Average of five validation folds of the training set.
subset: Not reported
population: Not reported
aggregation: Not reported
inputs: Not reported
adaptation: Paper-specific predictor; checkpoint not specified
budget: Not reported
metric implementation: Not reported

Metadata review: needs review. Unreported conditions prevent automatic comparisons.

Evaluation results

Release 2026-09-17-d277315f7d76 · 1 evaluation · 7 metric rows. Different protocols are not a single leaderboard.

Evaluation setupMetricEvidence origin

Results grouped by the exact reported evaluation
Metric and finding	Coverage and uncertainty	Evidence
Word2vec + TextCNN + MLP: Human RNA 2OMe sites, five-fold cross-validation Configuration: Word2vec + TextCNN + MLPProtocol: Human RNA 2OMe sites, five-fold cross-validation (human RNA 2-prime-O-methylation site prediction)Dataset: human RNA 2OMe sites 41-nt centred RNA windows; balanced 8,037 positive and 8,037 negative samples after 80% identity filtering, then 8:2 train/test division. Average of five validation folds of the training set. Author-reported evaluation · Evaluation metadata: needs review
0.852 AUPR Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checked2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model · Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 7: Human RNA 2OMe sites, five-fold cross-validation AUPR Source checking is not independent reproduction.
0.764 ACC Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checked2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model · Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Source checking is not independent reproduction.
0.772 Precision Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checked2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model · Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 4: Human RNA 2OMe sites, five-fold cross-validation Precision Source checking is not independent reproduction.
0.761 F1-score Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checked2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model · Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 3: Human RNA 2OMe sites, five-fold cross-validation F1-score Source checking is not independent reproduction.
0.529 MCC Unit: unitless · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checked2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model · Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 8: Human RNA 2OMe sites, five-fold cross-validation MCC Source checking is not independent reproduction.
0.844 AUC Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checked2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model · Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 6: Human RNA 2OMe sites, five-fold cross-validation AUC Source checking is not independent reproduction.
0.751 Recall Unit: fraction · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checked2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model · Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 5: Human RNA 2OMe sites, five-fold cross-validation Recall Source checking is not independent reproduction.

Evidence table

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.

19 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-09-17-d277315f7d76
Property and statement	Original source and location	Review and provenance
attributes.comparison.adaptation Paper-specific predictor; checkpoint not specified Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	not individually reviewed No individual claim review recorded author reported Audit details Field: `attributes.comparison.adaptation` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.aggregation No value recorded Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.aggregation` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.budget No value recorded Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.budget` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.dataset_version No value recorded Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.dataset_version` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.inputs No value recorded Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.inputs` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.metric_implementation No value recorded Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.metric_implementation` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.population No value recorded Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.population` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.protocol_id paper-protocol-1e891689a18fea3b65 Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	not individually reviewed No individual claim review recorded author reported Audit details Field: `attributes.comparison.protocol_id` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.split 41-nt centred RNA windows; balanced 8,037 positive and 8,037 negative samples after 80% identity filtering, then 8:2 train/test division. Average of five validation folds of the training set. Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	not individually reviewed No individual claim review recorded author reported Audit details Field: `attributes.comparison.split` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.subset No value recorded Context-only references	2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model Original source ↗ Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC Version: journal full text in PMC Retrieved: 2026-09-16T10:33:38.332Z	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.subset` Source artifact SHA-256: `54fe4db6f35c03d0d4f3ef4da720eb26a832199372c56d0956609ff07af750ee` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact

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Sources and history

Release 2026-09-17-d277315f7d76 · Record review: needs review

2OMe-LM: predicting 2′-O-methylation sites in human RNA using a pre-trained RNA language model · Original source · journal full text in PMC

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Technical metadata and extraction receipts

Stable ID: paper-evaluation-bf16b09cf9b317e04b

areas: rna-transcriptomes
tasks: human RNA 2-prime-O-methylation site prediction
origin: author_reported
protocol: 41-nt centred RNA windows; balanced 8,037 positive and 8,037 negative samples after 80% identity filtering, then 8:2 train/test division. Average of five validation folds of the training set.
version: Paper-specific predictor; checkpoint not specified
comparison: protocol id: paper-protocol-1e891689a18fea3b65; dataset version: Not reported; split: 41-nt centred RNA windows; balanced 8,037 positive and 8,037 negative samples after 80% identity filtering, then 8:2 train/test division. Average of five validation folds of the training set.; subset: Not reported; population: Not reported; aggregation: Not reported; inputs: Not reported; adaptation: Paper-specific predictor; checkpoint not specified; budget: Not reported; metric implementation: Not reported
source locator: Performance comparison of 2OMe-LM and deep learning baseline models using 5-fold CV. a; Table 1. (btaf417-T1), row 2 GloVe + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 3 GloVe + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 4 GloVe + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 5 Word2vec + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 6 Word2vec + TextCNN + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 7 Word2Vec + Transformer + MLP, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC; Table 1. (btaf417-T1), row 8 2OMe-LM, column 2: Human RNA 2OMe sites, five-fold cross-validation ACC
missing metadata: checkpoint revision: unextracted; budget: unreported; split manifest: unextracted

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