Configuration

Paired BindCraft designs joined by custom linkers with a GB1 solubility tag

Evidence concern: excluded from comparisons

The paper prints three different round-1 binder rates and two round-2 expression rates. Section 2.4 gives round 1 as '2.5% (5/201)' and round 2 as 'a 95% expression rate (378 of 400 tested)'; Section 4.1 gives expression as improving 'from 73% to 94%'; Section 4.1 gives the binder percentage as rising 'from 3% in the first round to 13%'. All the printed values are recorded with their locators and none is reconciled here.Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Sections 2.4, 4.1 and 4.2

Section 4.1 says Figure 8 shows 'the total number of validated binders across the 3 binding thresholds' but no section of the paper defines those three thresholds. No hit definition is therefore recorded for the Figure 8 counts, and the binding protocol's success threshold is left unstated with a reason rather than guessed.Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Section 4.1; Figure 8 caption

Composite multi-domain submissions, each joining two BindCraft designs and the GB1 solubility-enhancement tag with custom disordered linkers.

2 evaluations · 2 results

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Evaluations and results

2 evaluations · 2 results. Different protocols are not a single leaderboard.

Dataset: Adaptyv EGFR competition round 2 tested designs

Sorted by Count (designs confirmed as binders by BLI) (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.

Tested configuration	Protocol and dataset	Count (designs confirmed as binders by BLI)	Count (designs with high expression)
Paired BindCraft designs joined by custom linkers with a GB1 solubility tagEvaluation	Adaptyv EGFR competition BLI binding screen	did not bind	Not reported
Paired BindCraft designs joined by custom linkers with a GB1 solubility tagEvaluation	Adaptyv EGFR competition cell-free expression rate	Not reported	all five showed high expression

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Paired BindCraft designs joined by custom linkers with a GB1 solubility tag	Protocol: Adaptyv EGFR competition BLI binding screen Dataset: Adaptyv EGFR competition round 2 tested designs	did not bind Count (designs confirmed as binders by BLI) count · higher Uncertainty: Not applicable: An exact count. Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Evidence concern: excluded from comparisons The paper prints three different round-1 binder rates and two round-2 expression rates. Section 2.4 gives round 1 as '2.5% (5/201)' and round 2 as 'a 95% expression rate (378 of 400 tested)'; Section 4.1 gives expression as improving 'from 73% to 94%'; Section 4.1 gives the binder percentage as rising 'from 3% in the first round to 13%'. All the printed values are recorded with their locators and none is reconciled here.Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Sections 2.4, 4.1 and 4.2 Section 4.1 says Figure 8 shows 'the total number of validated binders across the 3 binding thresholds' but no section of the paper defines those three thresholds. No hit definition is therefore recorded for the Figure 8 counts, and the binding protocol's success threshold is left unstated with a reason rather than guessed.Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Section 4.1; Figure 8 caption Methods, coverage and source Paired BindCraft designs with a GB1 tag in Adaptyv round 2: Adaptyv EGFR competition BLI binding screen uc-binder-20261022-protocol-adaptyv-bli-binding Aggregation: Not reported Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Section 3.1: 'Five of these composite designs were tested in R2; all five showed high expression but did not bind.'
Configuration: Paired BindCraft designs joined by custom linkers with a GB1 solubility tag	Protocol: Adaptyv EGFR competition cell-free expression rate Dataset: Adaptyv EGFR competition round 2 tested designs	all five showed high expression Count (designs with high expression) count · higher Uncertainty: Not applicable: An exact count. Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Evidence concern: excluded from comparisons The paper prints three different round-1 binder rates and two round-2 expression rates. Section 2.4 gives round 1 as '2.5% (5/201)' and round 2 as 'a 95% expression rate (378 of 400 tested)'; Section 4.1 gives expression as improving 'from 73% to 94%'; Section 4.1 gives the binder percentage as rising 'from 3% in the first round to 13%'. All the printed values are recorded with their locators and none is reconciled here.Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Sections 2.4, 4.1 and 4.2 Section 4.1 says Figure 8 shows 'the total number of validated binders across the 3 binding thresholds' but no section of the paper defines those three thresholds. No hit definition is therefore recorded for the Figure 8 counts, and the binding protocol's success threshold is left unstated with a reason rather than guessed.Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Section 4.1; Figure 8 caption Methods, coverage and source Paired BindCraft designs with a GB1 tag in Adaptyv round 2: Adaptyv EGFR competition cell-free expression rate uc-binder-20261022-protocol-adaptyv-expression Aggregation: Not reported Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Section 3.1: 'Five of these composite designs were tested in R2; all five showed high expression but did not bind.'

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Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

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Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition (Cotet et al., bioRxiv 2025) · Original source · bioRxiv preprint version 1

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Technical metadata and extraction receipts

Stable ID: uc-binder-20261022-config-adaptyv-bindcraft-gb1-composite

areas: proteins-complexes; protein-structure
contexts: research
method types: specialist
access reuse: Entered by a participant, not by the BindCraft authors.
foundation model eligible: false
method role: design
parameters: Two BindCraft designs per submission plus the GB1 solubility-enhancement tag, connected by custom disordered linkers
reported name: BindCraft
review: artifact sha256: 17039d69ecc37f45f6c402511b8f4497ce631003689fa95ad1ab221f8f787a4f; method: source-hash-verification; independent-cell-check; ai-assisted-source-review; method note: Re-downloaded (HTTP 200, 493,217 bytes, the same byte count as the pinned retrieval) but the SHA-256 differs, as expected for a mutable bioRxiv page whose hash describes one retrieval. Every extracted value and every quoted sentence was then located verbatim in the new retrieval, so the difference is in page furniture and not in the evidence. One section attribution and one quotation were corrected.; note: Reviewed in docs/reviews/use-cases/binder-2026-10-22.md. Automated AI review of the source transcription only; it is not human scientific review and nothing here was reproduced experimentally.; retrieval url: https://www.biorxiv.org/content/10.1101/2025.04.17.648362v1.full; reviewed at: 2026-10-22T15:00:00Z; reviewer: claude; reviewer note: Claude review agent, independent of the extraction agent; no human review claimed
selection: Five composite designs were tested in round 2.
source locator: Section 3.1, final paragraph
version: As entered in Adaptyv EGFR competition round 2 by a third-party participant

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