rewirebio.iobenchmarks
Evaluation

ThermoNet on Ssym direct and inverse (Dieckhaus et al. 2024)

Published stability-change predictor 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 2026-10-10-6e93f504adfc · Evidence verified: Not verified

Evidence incomplete

Replay metrics

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  • 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

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  • 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
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Verified: Not verified

Evidence incomplete

Validate independently

Separate data and exposure records support an independent test.

Missing or unresolved evidence

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Verified: Not verified

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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 · 4 results. 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: ThermoNet (Dieckhaus et al. 2024)Protocol: Ssym direct and inverse ddG prediction (Dieckhaus et al. 2024 Table 3)
Dataset: Ssym (342 direct and 342 inverse variants with experimental structures)
0.47 pearson-correlation
unitless · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

ThermoNet on Ssym direct and inverse (Dieckhaus et al. 2024)

protein-stability-20261009-protocol-dieckhaus2024-ssym

Aggregation: Not reported

Transfer learning to leverage larger datasets for improved prediction of protein stability changes · Table 3, row 'ThermoNet ( 11 , 30 )', column 'Ssym (direct) PCC'
Configuration: ThermoNet (Dieckhaus et al. 2024)Protocol: Ssym direct and inverse ddG prediction (Dieckhaus et al. 2024 Table 3)
Dataset: Ssym (342 direct and 342 inverse variants with experimental structures)
1.56 root-mean-squared-error
kilocalorie-per-mole · lower

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

ThermoNet on Ssym direct and inverse (Dieckhaus et al. 2024)

protein-stability-20261009-protocol-dieckhaus2024-ssym

Aggregation: Not reported

Transfer learning to leverage larger datasets for improved prediction of protein stability changes · Table 3, row 'ThermoNet ( 11 , 30 )', column 'Ssym (direct) RMSE (kcal/mol)'
Configuration: ThermoNet (Dieckhaus et al. 2024)Protocol: Ssym direct and inverse ddG prediction (Dieckhaus et al. 2024 Table 3)
Dataset: Ssym (342 direct and 342 inverse variants with experimental structures)
0.47 pearson-correlation
unitless · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

ThermoNet on Ssym direct and inverse (Dieckhaus et al. 2024)

protein-stability-20261009-protocol-dieckhaus2024-ssym

Aggregation: Not reported

Transfer learning to leverage larger datasets for improved prediction of protein stability changes · Table 3, row 'ThermoNet ( 11 , 30 )', column 'Ssym (inverse) PCC'
Configuration: ThermoNet (Dieckhaus et al. 2024)Protocol: Ssym direct and inverse ddG prediction (Dieckhaus et al. 2024 Table 3)
Dataset: Ssym (342 direct and 342 inverse variants with experimental structures)
1.55 root-mean-squared-error
kilocalorie-per-mole · lower

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

ThermoNet on Ssym direct and inverse (Dieckhaus et al. 2024)

protein-stability-20261009-protocol-dieckhaus2024-ssym

Aggregation: Not reported

Transfer learning to leverage larger datasets for improved prediction of protein stability changes · Table 3, row 'ThermoNet ( 11 , 30 )', column 'Ssym (inverse) RMSE (kcal/mol)'

Source checking is not independent reproduction. Release 2026-10-10-6e93f504adfc.

Evaluation procedure

protein-stability-20261009-protocol-dieckhaus2024-ssym

Configuration
ThermoNet (Dieckhaus et al. 2024)
Protocol
Ssym direct and inverse ddG prediction (Dieckhaus et al. 2024 Table 3)
Dataset
Ssym (342 direct and 342 inverse variants with experimental structures)
origin
Result quoted from another source
configuration
Primary source as retrieved 2026-10-09
protocol id
protein-stability-20261009-protocol-dieckhaus2024-ssym
dataset version
Not reported
split
Ssym direct and inverse
population
Ssym direct and inverse
inputs
Protein structure or sequence and the mutation
adaptation
Not reported
metric implementation
Not reported
aggregation
Pooled over variants
budget
Not reported

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

Reproduction

Split
Ssym direct and inverse
Adaptation
Not reported
Scoring implementation
Not reported

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.

19 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-10-6e93f504adfc
Property and statementOriginal source and locationReview and provenance
attributes.comparison.adaptation
Not reported
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

missing or unspecified

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.adaptation

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.comparison.aggregation
Pooled over variants
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

not individually reviewed

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.aggregation

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.comparison.budget
Not reported
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

missing or unspecified

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.budget

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.comparison.dataset_version
Not reported
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

missing or unspecified

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.dataset_version

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.comparison.inputs
Protein structure or sequence and the mutation
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

not individually reviewed

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.inputs

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.comparison.metric_implementation
Not reported
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

missing or unspecified

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.metric_implementation

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.comparison.population
Ssym direct and inverse
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

not individually reviewed

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.population

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.comparison.protocol_id
protein-stability-20261009-protocol-dieckhaus2024-ssym
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

not individually reviewed

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.protocol_id

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.comparison.split
Ssym direct and inverse
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

not individually reviewed

No individual claim review recorded

paper compilation

Audit details

Field: attributes.comparison.split

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

attributes.limitations
1 values
  • Values cited from references 11 , 30 in Table 3.
Context-only references
Transfer learning to leverage larger datasets for improved prediction of protein stability changes

Original source ↗

Table 3, row 'ThermoNet ( 11 , 30 )'

Version: PNAS 121(6):e2314853121, published 2024-01-29; PMC10861915 full-text XML
Retrieved: 2026-10-09T21:01:06Z

not individually reviewed

No individual claim review recorded

paper compilation

Audit details

Field: attributes.limitations

Source artifact SHA-256: ba9a763c388eeea47d70fd0d8e2fbf497f61fc8a88dc93d5dac261572daa8010

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

Inspected artifact

Sources and history

Release 2026-10-10-6e93f504adfc · Record review: source checked

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

Stable ID: protein-stability-20261009-eval-dieckhaus2024-thermonet-ssym

areas
proteins-complexes
contexts
research
origin
paper_compilation
protocol
protein-stability-20261009-protocol-dieckhaus2024-ssym
version
Primary source as retrieved 2026-10-09
comparison
protocol id: protein-stability-20261009-protocol-dieckhaus2024-ssym; dataset version: Not reported; split: Ssym direct and inverse; population: Ssym direct and inverse; inputs: Protein structure or sequence and the mutation; adaptation: Not reported; metric implementation: Not reported; aggregation: Pooled over variants; budget: Not reported
source locator
Table 3, row 'ThermoNet ( 11 , 30 )'
missing metadata
comparison.dataset version: reason: unreported; comparison.metric implementation: reason: unreported
limitations
Values cited from references 11 , 30 in Table 3.
Related records

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