rewirebio.iobenchmarks
Evaluation

llama-basic-t0-8 on oncokb (Lin et al. 2025)

Published comparison; transcribed, not reproduced.

Research readiness

These checks assess whether the evidence supports a reproducible investigation. A source-checked score alone does not meet these requirements.

Release 2026-10-09-ba02f2f4a36e · Evidence verified: Not verified

Evidence incomplete

Replay metrics

Exact outcomes, predictions, identifiers and evaluator are connected.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • artifact hashes: verification is missing
  • join integrity: verification is missing
  • score semantics: verification is missing
  • metric replay: verification is missing

Verified: Not verified

Evidence incomplete

Investigate discrepancies

Replay evidence includes annotations and an assessment of dependence. Unknown independence permits descriptive analysis only.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • artifact hashes: verification is missing
  • join integrity: verification is missing
  • score semantics: verification is missing
  • metric replay: verification is missing
  • annotations: verification is missing
  • dependence: verification is missing

Verified: Not verified

Evidence incomplete

Run locally

A pinned recipe describes the inputs, environment and resource requirements.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • artifact hashes: verification is missing
  • join integrity: verification is missing
  • score semantics: verification is missing
  • recipe pinned: verification is missing
  • resource estimate: verification is missing

Verified: Not verified

Evidence incomplete

Validate independently

Separate data and exposure records support an independent test.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • artifact hashes: verification is missing
  • join integrity: verification is missing
  • score semantics: verification is missing
  • independent validation: verification is missing
  • overlap checked: verification is missing

Verified: Not verified

Readiness describes the evidence in this release. Availability on your computer is checked separately when an investigation runs. Existing data exposure can prevent independent validation even when files are available.

Artifacts and reproduction

No verified artifact manifest is connected to this record yet. The gaps above identify what is needed before analysis can begin.

Read reviewed discrepancy investigations

Evaluation results

1 evaluation · 1 result. Different protocols are not a single leaderboard.

Filter evaluations

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configurationProtocol and datasetFindingEvidence and details
Configuration: Llama 3.1 70B, basic prompt, temperature 0.8 (default) (Lin et al. 2025)Protocol: Lin et al. 2025 OncoKB level-of-evidence assignment
Dataset: OncoKB actionable-genes table, 625 variant-cancer-drug associations (accessed 2024-11-20)
0.307 top-1-accuracy
fraction · higher

Uncertainty: 95% CI 0.3041 to 0.309

Coverage: Not reported scored / Not reported eligible

Independent external evaluation · Source checked
Methods, coverage and source

llama-basic-t0-8 on oncokb (Lin et al. 2025)

egfrnsclc-20261009-protocol-lin2025-oncokb-level-assignment

Aggregation: Not reported

Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification · Table 1 (Tab1), row 'OncoKB', column 'Llama 3' Mean accuracy; 95% CI in the next column

Source checking is not independent reproduction. Release 2026-10-09-ba02f2f4a36e.

Evaluation procedure

egfrnsclc-20261009-protocol-lin2025-oncokb-level-assignment

Configuration
Llama 3.1 70B, basic prompt, temperature 0.8 (default) (Lin et al. 2025)
Protocol
Lin et al. 2025 OncoKB level-of-evidence assignment
Dataset
OncoKB actionable-genes table, 625 variant-cancer-drug associations (accessed 2024-11-20)
origin
Independent external evaluation
configuration
Primary source as retrieved 2026-10-09
protocol id
egfrnsclc-20261009-protocol-lin2025-oncokb-level-assignment
dataset version
egfrnsclc-20261009-data-lin2025-oncokb-associations
split
Whole table; no training split (prompted models)
population
OncoKB level of evidence
inputs
Gene, alteration and tumour type as a natural-language query
adaptation
Prompting only
metric implementation
Top-1 answer compared with the reference level
aggregation
Mean over 100 iterations
budget
Not reported

Metadata review: source checked. Unreported conditions prevent automatic comparisons.

Reproduction

Split
Whole table; no training split (prompted models)
Adaptation
Prompting only
Scoring implementation
Top-1 answer compared with the reference level

No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.

Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.

Evidence

Source checking verifies the cited claim or transcription. It does not establish 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.

18 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-09-ba02f2f4a36e
Property and statementOriginal source and locationReview and provenance
attributes.comparison.adaptation
Prompting only
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.adaptation

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.comparison.aggregation
Mean over 100 iterations
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.aggregation

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.comparison.budget
Not reported
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.budget

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.comparison.dataset_version
egfrnsclc-20261009-data-lin2025-oncokb-associations
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.dataset_version

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.comparison.inputs
Gene, alteration and tumour type as a natural-language query
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.inputs

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.comparison.metric_implementation
Top-1 answer compared with the reference level
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.metric_implementation

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.comparison.population
OncoKB level of evidence
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.population

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.comparison.protocol_id
egfrnsclc-20261009-protocol-lin2025-oncokb-level-assignment
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.protocol_id

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.comparison.split
Whole table; no training split (prompted models)
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.split

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.origin
independent_paper
Context-only references
Benchmarking large language models GPT-4o, llama 3.1, and qwen 2.5 for cancer genetic variant classification

Original source ↗

Table 1 row 'OncoKB', columns for Llama 3

Version: npj Precision Oncology 9:141, published 2025-05-15; PMC12078457 full-text XML
Retrieved: 2026-10-09T20:43:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.origin

Source artifact SHA-256: 09c67fcaf7b367d74500db5fd015968389371dcb9ee5a37ccc83241aa63c0f80

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Sources and history

Release 2026-10-09-ba02f2f4a36e · Record review: source checked

1 source records and release historyDownload this release (gzip)
Technical metadata and extraction receipts

Stable ID: egfrnsclc-20261009-eval-lin2025-llama-basic-t0-8-oncokb

areas
dna-genomes
contexts
clinical_research
origin
independent_paper
protocol
egfrnsclc-20261009-protocol-lin2025-oncokb-level-assignment
version
Primary source as retrieved 2026-10-09
comparison
protocol id: egfrnsclc-20261009-protocol-lin2025-oncokb-level-assignment; dataset version: egfrnsclc-20261009-data-lin2025-oncokb-associations; split: Whole table; no training split (prompted models); population: OncoKB level of evidence; inputs: Gene, alteration and tumour type as a natural-language query; adaptation: Prompting only; metric implementation: Top-1 answer compared with the reference level; aggregation: Mean over 100 iterations; budget: Not reported
source locator
Table 1 row 'OncoKB', columns for Llama 3
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