NT-2.5b-Multi
Frozen NT-2.5b-Multi mean-pooled last-hidden-state embeddings with task-specific logistic-regression or mini-batch k-means probe. Exact source checkpoint/evaluator revision is unreported.
Overview
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Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Evaluations and results
16 evaluations · 16 results. Different protocols are not a single leaderboard.
Sorted by Accuracy (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.
All 16 result rows with coverage, uncertainty and sources
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Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HMPD-disease: HMPD-disease genomic embedding evaluation Dataset subset: HMPD-disease Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.498 Accuracy fraction · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HMPD-disease, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HMPD-sex: HMPD-sex genomic embedding evaluation Dataset subset: HMPD-sex Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.487 Accuracy fraction · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HMPD-sex, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HMPD-single: HMPD-single genomic embedding evaluation Dataset subset: HMPD-single Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.285 Accuracy fraction · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HMPD-single, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HMPD-source: HMPD-source genomic embedding evaluation Dataset subset: HMPD-source Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.523 Accuracy fraction · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HMPD-source, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HMPR-p2p: HMPR-p2p genomic embedding evaluation Dataset subset: HMPR-p2p Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.471 V measure unitless · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HMPR-p2p, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HMPR-s2s-align: HMPR-s2s-align genomic embedding evaluation Dataset subset: HMPR-s2s-align Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.144 V measure unitless · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HMPR-s2s-align, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HMPR-s2s-small: HMPR-s2s-small genomic embedding evaluation Dataset subset: HMPR-s2s-small Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.443 V measure unitless · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HMPR-s2s-small, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HMPR-s2s-tiny: HMPR-s2s-tiny genomic embedding evaluation Dataset subset: HMPR-s2s-tiny Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.332 V measure unitless · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HMPR-s2s-tiny, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark Human-Virus-1: Human-Virus-1 genomic embedding evaluation Dataset subset: Human-Virus-1 Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.671 Accuracy fraction · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row Human-Virus-1, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark Human-Virus-2: Human-Virus-2 genomic embedding evaluation Dataset subset: Human-Virus-2 Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.652 Accuracy fraction · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row Human-Virus-2, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark Human-Virus-3: Human-Virus-3 genomic embedding evaluation Dataset subset: Human-Virus-3 Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.758 Accuracy fraction · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row Human-Virus-3, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark Human-Virus-4: Human-Virus-4 genomic embedding evaluation Dataset subset: Human-Virus-4 Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.62 Accuracy fraction · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row Human-Virus-4, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HVR-p2p: HVR-p2p genomic embedding evaluation Dataset subset: HVR-p2p Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.559 V measure unitless · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HVR-p2p: HVR-p2p genomic embedding evaluation Frozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HVR-p2p, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HVR-s2s-align: HVR-s2s-align genomic embedding evaluation Dataset subset: HVR-s2s-align Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.266 V measure unitless · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HVR-s2s-align, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HVR-s2s-small: HVR-s2s-small genomic embedding evaluation Dataset subset: HVR-s2s-small Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 0.357 V measure unitless · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HVR-s2s-small, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
| Pipeline: NT-2.5b-Multi | Protocol: Gene-MTEB genomic embedding benchmark HVR-s2s-tiny: HVR-s2s-tiny genomic embedding evaluation Dataset subset: HVR-s2s-tiny Gene-MTEB data used in METAGENE-1 Table 3 (Gene-MTEB genomic embedding benchmark split) | 1 V measure unitless · higher Uncertainty: Not yet extracted Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFrozen model last-hidden-state embeddings, mean pooled. Logistic regression for eight classification tasks and mini-batch k-means for eight clustering tasks. Source paper Section 5.3. Current official gene-mteb implementation corroborates task identities but its commit is not proven identical to the paper evaluator. Exact dataset release, split hash, scored counts and evaluator commit are unreported in the paper. Do not substitute current mutable HF main for the original split. Aggregation: Not reported METAGENE-1 v1: Gene-MTEB complete component tasks · Table 3 (S5.T3), row HVR-s2s-tiny, column NT-2.5b-Multi; Section 5.3 paragraphs S5.SS3.p2.1 and S5.SS3.p3.1 |
Source checking is not independent reproduction. Release 2026-11-02-a7f03c9e55a5.
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Underlying model: Nucleotide Transformer. Results on this page belong to this pipeline and its evaluated settings.
Evidence
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Evidence table
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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.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Relationship: uses model discovery-model-nucleotide-transformer Individual claims | METAGENE-1 v1: Gene-MTEB complete component tasks Section 5.3; Table 3 NT-2.5b-Multi column Version: arXiv:2501.02045v1 | source checked ["automated-source-review"] · 2026-09-23 Audit detailsSource-backed evaluated identity only; no independent reproduction. Field: Claim: metagene-gene-mteb-method-nt-2-5b-multi-discovery-model-nucleotide-transformer-identity-claim Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
Release 2026-11-02-a7f03c9e55a5 · Record review: source checked
1 source record and release history
- METAGENE-1 v1: Gene-MTEB complete component tasks · Original source · arXiv:2501.02045v1
Technical metadata and extraction receipts
Stable ID: metagene-gene-mteb-method-nt-2-5b-multi
- areas
- dna-genomes
- source locator
- Section 5.3; Table 3 NT-2.5b-Multi column
- missing metadata
- checkpoint revision: reason: unreported; parameters: reason: unextracted
Related records
- uses model: Nucleotide Transformer
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HMPD-disease: HMPD-disease genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HMPD-sex: HMPD-sex genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HMPD-single: HMPD-single genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HMPD-source: HMPD-source genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HMPR-p2p: HMPR-p2p genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HMPR-s2s-align: HMPR-s2s-align genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HMPR-s2s-small: HMPR-s2s-small genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HMPR-s2s-tiny: HMPR-s2s-tiny genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark Human-Virus-1: Human-Virus-1 genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark Human-Virus-2: Human-Virus-2 genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark Human-Virus-3: Human-Virus-3 genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark Human-Virus-4: Human-Virus-4 genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HVR-p2p: HVR-p2p genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HVR-s2s-align: HVR-s2s-align genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HVR-s2s-small: HVR-s2s-small genomic embedding evaluation
- system: NT-2.5b-Multi on Gene-MTEB genomic embedding benchmark HVR-s2s-tiny: HVR-s2s-tiny genomic embedding evaluation
- subject: NT-2.5b-Multi: uses model discovery-model-nucleotide-transformer