GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
Average macro-MCC across the 13 representative tasks, MLP probe. Scored with Macro-MCC on GENEB representative task subset. Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7).
Overview
Average macro-MCC across the 13 representative tasks, MLP probe. Scored with Macro-MCC on GENEB representative task subset. Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7).
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Evaluation design
Benchmarks bring together tasks and protocols. A task describes the biological question; a protocol defines a particular test.
Benchmarks
These source-backed links do not make different protocols or scores interchangeable.
Recorded evaluations
Each evaluation records what was tested and under which conditions.
- GENA-LM-Large-T2T on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- GENERator-Eukaryote-1.2B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- GENERator-Eukaryote-3B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- GenomeOcean-4B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- GenomeOcean-500M on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- GROVER on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- HyenaDNA-Large-1M on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- LucaOne on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- MutBERT on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- NT-v2-50M-MS on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- Omni-DNA-1B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
Run instructions
No runnable recipe has been reviewed for this task. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.
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Published comparisons
Explore the results reported under one evaluation protocol. Each figure keeps its source, dataset and metric together; it is not a ranking across studies. The pooled view gathers every source table that reports the same metric and names what it does not hold constant.
GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
macro_mcc (correlation) · Higher values are better for this metric.
Every method GENEB reports on Average macro-MCC across the 13 representative tasks, MLP probe, scored with Macro-MCC on GENEB representative task subset.
Evaluation protocol · GENEB representative task subset (GENEB split)
- GENERator-Eukaryote-3B · Configuration · Author-reported evaluation0.609
- GENERator-Eukaryote-1.2B · Configuration · Author-reported evaluation0.595
- LucaOne · Configuration · Author-reported evaluation0.600
- GenomeOcean-4B · Configuration · Author-reported evaluation0.552
- Omni-DNA-1B · Configuration · Author-reported evaluation0.542
- GenomeOcean-500M · Configuration · Author-reported evaluation0.535
- GENA-LM-Large-T2T · Configuration · Author-reported evaluation0.535
- MutBERT · Configuration · Author-reported evaluation0.517
- NT-v2-50M-MS · Configuration · Author-reported evaluation0.521
- GROVER · Configuration · Author-reported evaluation0.477
- HyenaDNA-Large-1M · Configuration · Author-reported evaluation0.479
Source order is preserved. Plotted marks show point estimates; uncertainty, where reported, is retained in the printed values and table. Differences do not establish statistical significance.
GENEB: Why Genomic Models Are Hard to Compare · Table 8, column(MLP MCC)Values, uncertainty and evidence
| Tested entity | Printed value | Uncertainty | Evidence |
|---|---|---|---|
| GENERator-Eukaryote-3B · Configuration | 0.609 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GENERator-Eukaryote-3B), column(MLP MCC) |
| GENERator-Eukaryote-1.2B · Configuration | 0.595 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GENERator-Eukaryote-1.2B), column(MLP MCC) |
| LucaOne · Configuration | 0.600 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(LucaOne), column(MLP MCC) |
| GenomeOcean-4B · Configuration | 0.552 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GenomeOcean-4B), column(MLP MCC) |
| Omni-DNA-1B · Configuration | 0.542 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(Omni-DNA-1B), column(MLP MCC) |
| GenomeOcean-500M · Configuration | 0.535 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GenomeOcean-500M), column(MLP MCC) |
| GENA-LM-Large-T2T · Configuration | 0.535 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GENA-LM-Large-T2T), column(MLP MCC) |
| MutBERT · Configuration | 0.517 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(MutBERT), column(MLP MCC) |
| NT-v2-50M-MS · Configuration | 0.521 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(NT-v2-50M-MS), column(MLP MCC) |
| GROVER · Configuration | 0.477 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GROVER), column(MLP MCC) |
| HyenaDNA-Large-1M · Configuration | 0.479 correlation | Not reported | Author-reported evaluation · source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(HyenaDNA-Large-1M), column(MLP MCC) |
Scope and limitations
- Author-reported numbers, source checked but not independently reproduced.
- These are averages over the thirteen representative tasks, not a score on any single task.
- The paper's own point is that these rankings shift with the probe and the protocol, so a position here is not a general ranking.
Source transcription and grouping reviewed by automated source review on 2026-09-18. These experiments were not independently reproduced by rewire.
Tested entities and results
Release 2026-09-17-134cd1815de8 · 11 evaluations · 11 metric rows. Different protocols are not a single leaderboard. Where several source tables report the same metric, the published comparisons above offer a pooled view that names what it does not hold constant.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| GENA-LM-Large-T2T on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: GENA-LM-Large-T2TTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.535 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GENA-LM-Large-T2T), column(MLP MCC) Source checking is not independent reproduction. |
| GENERator-Eukaryote-1.2B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: GENERator-Eukaryote-1.2BTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.595 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GENERator-Eukaryote-1.2B), column(MLP MCC) Source checking is not independent reproduction. |
| GENERator-Eukaryote-3B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: GENERator-Eukaryote-3BTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.609 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GENERator-Eukaryote-3B), column(MLP MCC) Source checking is not independent reproduction. |
| GenomeOcean-4B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: GenomeOcean-4BTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.552 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GenomeOcean-4B), column(MLP MCC) Source checking is not independent reproduction. |
| GenomeOcean-500M on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: GenomeOcean-500MTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.535 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GenomeOcean-500M), column(MLP MCC) Source checking is not independent reproduction. |
| GROVER on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: GROVERTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.477 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(GROVER), column(MLP MCC) Source checking is not independent reproduction. |
| HyenaDNA-Large-1M on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: HyenaDNA-Large-1MTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.479 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(HyenaDNA-Large-1M), column(MLP MCC) Source checking is not independent reproduction. |
| LucaOne on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: LucaOneTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.600 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(LucaOne), column(MLP MCC) Source checking is not independent reproduction. |
| MutBERT on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: MutBERTTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.517 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(MutBERT), column(MLP MCC) Source checking is not independent reproduction. |
| NT-v2-50M-MS on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: NT-v2-50M-MSTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.521 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(NT-v2-50M-MS), column(MLP MCC) Source checking is not independent reproduction. |
| Omni-DNA-1B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe Configuration: Omni-DNA-1BTask: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probeDataset subset: GENEB representative task subset (GENEB split) Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7). Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.542 macro_mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedGENEB: Why Genomic Models Are Hard to Compare · Table 8, row(Omni-DNA-1B), column(MLP MCC) Source checking is not independent reproduction. |
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.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Relationship: part of discovery-benchmark-geneb Individual claims | GENEB: Why Genomic Models Are Hard to Compare Table 8, column(MLP MCC) Version: 2606.04525v1 | source checked automated source review · 2026-09-18 Audit detailsPrimary-source transcription with no human sign-off and no independent reproduction. Field: Claim: geneb-association-mlp-probe Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Sources and history
Release 2026-09-17-134cd1815de8 · Record review: source checked
1 source records and release history
- GENEB: Why Genomic Models Are Hard to Compare · Original source · 2606.04525v1
Technical metadata and extraction receipts
Stable ID: geneb-task-mlp-probe
- areas
- dna-genomes
- tasks
- Average macro-MCC across the 13 representative tasks, MLP probe
- metric
- Macro-MCC
- metric direction
- higher
- dataset
- GENEB representative task subset
- protocol
- Frozen embeddings scored with a probe over the thirteen representative tasks, one from each functional category (Table 7).
- source locator
- Table 8, column(MLP MCC)
- comparison panels
- id: geneb-panel-mlp-probe; title: GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe; protocol id: geneb-task-mlp-probe; dataset id: geneb-dataset-geneb-representative-task-subset; metric: macro_mcc; unit: correlation; direction: higher; result ids: geneb-result-generator-eukaryote-3b-mlp-probe-macro-mcc; geneb-result-generator-eukaryote-1-2b-mlp-probe-macro-mcc; geneb-result-lucaone-mlp-probe-macro-mcc; geneb-result-genomeocean-4b-mlp-probe-macro-mcc; geneb-result-omni-dna-1b-mlp-probe-macro-mcc; geneb-result-genomeocean-500m-mlp-probe-macro-mcc; geneb-result-gena-lm-large-t2t-mlp-probe-macro-mcc; geneb-result-mutbert-mlp-probe-macro-mcc; geneb-result-nt-v2-50m-ms-mlp-probe-macro-mcc; geneb-result-grover-mlp-probe-macro-mcc; geneb-result-hyenadna-large-1m-mlp-probe-macro-mcc; source ids: evidence-expansion-p2-evidence-discovery-final-geneb-47975089c0ca; source locator: Table 8, column(MLP MCC); context: Every method GENEB reports on Average macro-MCC across the 13 representative tasks, MLP probe, scored with Macro-MCC on GENEB representative task subset.; caveats: Author-reported numbers, source checked but not independently reproduced.; These are averages over the thirteen representative tasks, not a score on any single task.; The paper's own point is that these rankings shift with the probe and the protocol, so a position here is not a general ranking.; review: method: automated_source_review; date: 2026-09-18
Related records
- part of: GENEB
- subject: GENEB MLP-PROBE: part of discovery-benchmark-geneb
- benchmark: GENA-LM-Large-T2T on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: GENERator-Eukaryote-1.2B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: GENERator-Eukaryote-3B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: GenomeOcean-4B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: GenomeOcean-500M on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: GROVER on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: HyenaDNA-Large-1M on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: LucaOne on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: MutBERT on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: NT-v2-50M-MS on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe
- benchmark: Omni-DNA-1B on GENEB MLP-PROBE: Average macro-MCC across the 13 representative tasks, MLP probe