Evidence claim

TAPE Bepler: description

Protein language model of Bepler et al. as benchmarked in TAPE: a two-layer bidirectional language model followed by three bidirectional LSTMs with 512 hidden units, trained by next-token prediction.

Replace a placeholder description with a sourced functional description (issue #88). Historical releases retain the original value.

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.

70 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-11-02-a7f03c9e55a5
Property and statement	Original source and location	Review and provenance
Claimed field description Context-only references	Evaluating Protein Transfer Learning with TAPE Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact
Claimed field description Context-only references	songlab-cal/tape: README.md Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 6d345c2b2bbf52cd32cf179325c222afd92aec7e Retrieved: 2026-09-16T19:46:20.570146+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `b28c74fe3cd6b69a8ba6d84891d0539e54dfef882abd5ed4d11ed0b029bb477a` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	songlab-cal/tape: tape/models/modeling_unirep.py Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 6d345c2b2bbf52cd32cf179325c222afd92aec7e Retrieved: 2026-09-16T19:46:20.570146+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `f6a0da726a8bcdd40640fab39c0814a56d6188531b44a3ce6e7e7137755c9a02` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	tbepler/protein-sequence-embedding-iclr2019: README.md Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: be32cffeec26431bdf87438eb5f07ddd6fc5d7dd Retrieved: 2026-09-16T19:57:33.688522+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `ecb193485e89d65558a509bae571057862dd079d29afc877c8c9812c4c525415` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	songlab-cal/tape: tape/models/modeling_onehot.py Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 6d345c2b2bbf52cd32cf179325c222afd92aec7e Retrieved: 2026-09-16T19:46:20.570146+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `546fab3931d2ae7b6a0ee06ff64c6bcedf2d58b460e5aa90be623b0895befe43` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	songlab-cal/tape: tape/models/modeling_lstm.py Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 6d345c2b2bbf52cd32cf179325c222afd92aec7e Retrieved: 2026-09-16T19:46:20.570146+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `e857bc4d6d551915a375116208f7f74b286e7fc88d0d54f54b2746b2fb02e1ca` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	tape: Primary paper PDF Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	songlab-cal/tape: tape/models/modeling_resnet.py Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 6d345c2b2bbf52cd32cf179325c222afd92aec7e Retrieved: 2026-09-16T19:46:20.570146+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `fc97f083f059f5b587d568aa0c32f7cca227e247160a7e22e3a168aef1469ebe` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	songlab-cal/tape: tape/models/modeling_bert.py Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 6d345c2b2bbf52cd32cf179325c222afd92aec7e Retrieved: 2026-09-16T19:46:20.570146+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `eba47206598a0e93e2f662d9c87343222556f236ac37373236e3970c43fb521d` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	songlab-cal/tape official source Original source ↗ evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 6d345c2b2bbf52cd32cf179325c222afd92aec7e Retrieved: 2026-09-16T10:31:32.443187+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `b28c74fe3cd6b69a8ba6d84891d0539e54dfef882abd5ed4d11ed0b029bb477a` Hash scope: Hash scope not separately documented; inspect source record

How to read the evidence

Sources and history

Release 2026-11-02-a7f03c9e55a5 · Record review: source checked

10 source records and release history

songlab-cal/tape official source · Original source · 6d345c2b2bbf52cd32cf179325c222afd92aec7e
songlab-cal/tape: README.md · Original source · 6d345c2b2bbf52cd32cf179325c222afd92aec7e
songlab-cal/tape: tape/models/modeling_lstm.py · Original source · 6d345c2b2bbf52cd32cf179325c222afd92aec7e
songlab-cal/tape: tape/models/modeling_resnet.py · Original source · 6d345c2b2bbf52cd32cf179325c222afd92aec7e
songlab-cal/tape: tape/models/modeling_unirep.py · Original source · 6d345c2b2bbf52cd32cf179325c222afd92aec7e
songlab-cal/tape: tape/models/modeling_onehot.py · Original source · 6d345c2b2bbf52cd32cf179325c222afd92aec7e
songlab-cal/tape: tape/models/modeling_bert.py · Original source · 6d345c2b2bbf52cd32cf179325c222afd92aec7e
tbepler/protein-sequence-embedding-iclr2019: README.md · Original source · be32cffeec26431bdf87438eb5f07ddd6fc5d7dd
tape: Primary paper PDF · Original source · 1906.08230v1
Evaluating Protein Transfer Learning with TAPE · Original source · 1906.08230v1

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Technical metadata and extraction receipts

Stable ID: metadata-correction-0059a9e04e0ec9ef7647

areas: protein-function
field: description
previous value: Method identity as printed in the historical TAPE leaderboard.
value: Protein language model of Bepler et al. as benchmarked in TAPE: a two-layer bidirectional language model followed by three bidirectional LSTMs with 512 hidden units, trained by next-token prediction.
source locator: evidence-expansion-evidence-discovery-final-tape-6ee0c3e6: Models and Experimental Setup, Architectures and Training
review: method: automated-source-review; ai-assisted-source-review; reviewer: claude; reviewer note: Extractor: Claude integrator agent for issue #88. Reviewer: a separate Claude review agent, independent of the extractor; no human review claimed.; date: 2026-10-11; method note: Compared the store diff with origin/main, read each new description against its cited source passage and checked the licence of each new source record.; note: Approved. Checked the new sources' licences against the arXiv abstract pages and Europe PMC, the 7 scFoundation pipeline descriptions against their abstracts, the language-model descriptions against their model cards and reports, and the TAPE architecture figures against the TAPE paper; all correct. The catalogue entries reuse reviewed profile summaries.; receipt: data/omics/qa-descriptions-20261011-b/review.json

Related records

subject: TAPE Bepler

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