benchmark · suite

TAPE

TAPE evaluates protein embeddings on five supervised downstream tasks.

At a glance

Explanatory profile: source reviewed · Automated source review, 2026-09-16. This does not change the review status of its results.

Data, procedure and scoring
Property	Description and evidence
Record type	Task suitesonglab-cal/tape official source · README: introduction; List of Models and Tasks; Data; Leaderboard
Inputs	Protein sequences and task-specific labelssonglab-cal/tape official source · README: introduction; List of Models and Tasks; Data; Leaderboard
Outputs and assessment	Classification, contact precision or rank-correlation metricssonglab-cal/tape official source · README: introduction; List of Models and Tasks; Data; Leaderboard
Datasets	Not extracted or verified for this record.
Organisms	Not extracted or verified for this record.
Assays	Not extracted or verified for this record.
Splits	Not extracted or verified for this record.
Adaptation	Not extracted or verified for this record.
Baselines	Not extracted or verified for this record.

How it works

Procedure overview

Conceptual overview of the cited procedure; consult the pinned source for executable settings.

Read the diagram as text

Select downstream task
Fit task predictor
Evaluate held-out proteins
Report task metric

songlab-cal/tape official source · README: introduction; List of Models and Tasks; Data; Leaderboard

Procedure

Choose secondary structure, contact prediction, remote homology, fluorescence or stability. Train a task head and evaluate using the corresponding data and metric. The current PyTorch repository differs from the original publication code.

songlab-cal/tape official source · README: introduction; List of Models and Tasks; Data; Leaderboard

Connected tasks and protocols

TAPE Contact Prediction · task · part of
TAPE Fluorescence · task · part of
TAPE Remote Homology Detection · task · part of
TAPE Secondary Structure · task · part of
TAPE Stability · task · part of

These associations do not imply identical protocols or interchangeable scores.

Tested models and results

Release 2026-09-16-d74d282221a9 · 12 evaluations · 12 metric rows. Different protocols are not a single leaderboard.

Evaluated configurationMetricEvidence origin

Results grouped by the exact reported evaluation
Metric and finding	Coverage and uncertainty	Evidence
TAPE Fluorescence Bepler leaderboard evaluation Model: TAPE Bepler · Benchmark: TAPE Fluorescence · Dataset: TAPE Fluorescence source dataset TAPE Fluorescence Author-reported evaluation · Evaluation metadata: discovered
0.33 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Fluorescence; row Bepler; column Spearman's rho Source checking is not independent reproduction.
TAPE Fluorescence LSTM leaderboard evaluation Model: TAPE LSTM · Benchmark: TAPE Fluorescence · Dataset: TAPE Fluorescence source dataset TAPE Fluorescence Author-reported evaluation · Evaluation metadata: discovered
0.67 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Fluorescence; row LSTM; column Spearman's rho Source checking is not independent reproduction.
TAPE Fluorescence One Hot leaderboard evaluation Model: TAPE One Hot · Benchmark: TAPE Fluorescence · Dataset: TAPE Fluorescence source dataset TAPE Fluorescence Author-reported evaluation · Evaluation metadata: discovered
0.14 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Fluorescence; row One Hot; column Spearman's rho Source checking is not independent reproduction.
TAPE Fluorescence ResNet leaderboard evaluation Model: TAPE ResNet · Benchmark: TAPE Fluorescence · Dataset: TAPE Fluorescence source dataset TAPE Fluorescence Author-reported evaluation · Evaluation metadata: discovered
0.21 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Fluorescence; row ResNet; column Spearman's rho Source checking is not independent reproduction.
TAPE Fluorescence Transformer leaderboard evaluation Model: TAPE Transformer · Benchmark: TAPE Fluorescence · Dataset: TAPE Fluorescence source dataset TAPE Fluorescence Author-reported evaluation · Evaluation metadata: discovered
0.68 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Fluorescence; row Transformer; column Spearman's rho Source checking is not independent reproduction.
TAPE Fluorescence Unirep leaderboard evaluation Model: TAPE Unirep · Benchmark: TAPE Fluorescence · Dataset: TAPE Fluorescence source dataset TAPE Fluorescence Author-reported evaluation · Evaluation metadata: discovered
0.67 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Fluorescence; row Unirep; column Spearman's rho Source checking is not independent reproduction.
TAPE Stability Bepler leaderboard evaluation Model: TAPE Bepler · Benchmark: TAPE Stability · Dataset: TAPE Stability source dataset TAPE Stability Author-reported evaluation · Evaluation metadata: discovered
0.64 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Stability; row Bepler; column Spearman's rho Source checking is not independent reproduction.
TAPE Stability LSTM leaderboard evaluation Model: TAPE LSTM · Benchmark: TAPE Stability · Dataset: TAPE Stability source dataset TAPE Stability Author-reported evaluation · Evaluation metadata: discovered
0.69 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Stability; row LSTM; column Spearman's rho Source checking is not independent reproduction.
TAPE Stability One Hot leaderboard evaluation Model: TAPE One Hot · Benchmark: TAPE Stability · Dataset: TAPE Stability source dataset TAPE Stability Author-reported evaluation · Evaluation metadata: discovered
0.19 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Stability; row One Hot; column Spearman's rho Source checking is not independent reproduction.
TAPE Stability ResNet leaderboard evaluation Model: TAPE ResNet · Benchmark: TAPE Stability · Dataset: TAPE Stability source dataset TAPE Stability Author-reported evaluation · Evaluation metadata: discovered
0.73 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Stability; row ResNet; column Spearman's rho Source checking is not independent reproduction.
TAPE Stability Transformer leaderboard evaluation Model: TAPE Transformer · Benchmark: TAPE Stability · Dataset: TAPE Stability source dataset TAPE Stability Author-reported evaluation · Evaluation metadata: discovered
0.73 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Stability; row Transformer; column Spearman's rho Source checking is not independent reproduction.
TAPE Stability Unirep leaderboard evaluation Model: TAPE Unirep · Benchmark: TAPE Stability · Dataset: TAPE Stability source dataset TAPE Stability Author-reported evaluation · Evaluation metadata: discovered
0.73 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedsonglab-cal/tape official source · README.md > Leaderboard > Stability; row Unirep; column Spearman's rho Source checking is not independent reproduction.

Strengths and limitations

Strengths supported by sources

Includes simple one-hot comparators alongside pretrained representations.songlab-cal/tape official source · README: introduction; List of Models and Tasks; Data; Leaderboard

Limitations and conditions

The maintainers explicitly advise using the original implementation to reproduce the original paper.songlab-cal/tape official source · README: introduction; List of Models and Tasks; Data; Leaderboard

Profile review details

Primary-source description checked by an automated research assistant. This is a profile review, not an independent execution or numerical reproduction.

Stable record: discovery-benchmark-tape

Applicable tests and references

Applicability is distinct from a completed evaluation.

One-hot protein encoding · source_supported

Sources and history

Release 2026-09-16-d74d282221a9 · Record review: discovered

songlab-cal/tape official source · Original source · 6d345c2b2bbf52cd32cf179325c222afd92aec7e

Download this release

Technical metadata and extraction receipts

Stable ID: discovery-benchmark-tape

areas: protein-function
entity level: suite
missing metadata: dataset release: unextracted; metric implementation: unextracted; split manifest: unextracted; version: unextracted
scope note: Specialist molecular or omics evaluation; protocol details require review before numerical comparison.
task: Protein representation learning tasks
version: Not reported

Related records

Suggest a correction