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Adaptyv EGFR competition round 1 selected submissions

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

The 201 round-1 submissions Adaptyv selected for testing: the top 100 by interface predicted aligned error from AlphaFold2-Multimer plus 101 chosen by hand from 726 submissions.

2 evaluations · 4 results

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Evaluations and results

2 evaluations · 4 results. Different protocols are not a single leaderboard.

Dataset: Adaptyv EGFR competition round 1 tested designs

Sorted by Count (novel binders confirmed by BLI; two further binders were disqualified for similarity to an existing EGFR binder) (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 (novel binders confirmed by BLI; two further binders were disqualified for similarity to an existing EGFR binder)	Hit rate (designs confirmed as binders by BLI, out of designs selected for testing, as stated in Section 4.2; Section 2.4 prints 2.5% (5/201) for the same round)	Hit rate (novel binders confirmed by BLI, out of designs selected for testing; excludes two binders later disqualified for similarity to an existing binder)	Proportion (designs expressing above the 0.02 microgram per millilitre threshold, out of designs selected for testing)
Adaptyv EGFR competition round 1 selected submissionsEvaluation	Adaptyv EGFR competition BLI binding screen	5 novel binders (+2 disqualified binders which slipped through the similarity check to existing binders initially)	3%	2.5% (5/201)	Not reported
Adaptyv EGFR competition round 1 selected submissionsEvaluation	Adaptyv EGFR competition cell-free expression rate	Not reported	Not reported	Not reported	73%

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Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Adaptyv EGFR competition round 1 selected submissions	Protocol: Adaptyv EGFR competition BLI binding screen Dataset: Adaptyv EGFR competition round 1 tested designs	5 novel binders (+2 disqualified binders which slipped through the similarity check to existing binders initially) Count (novel binders confirmed by BLI; two further binders were disqualified for similarity to an existing EGFR binder) 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 Adaptyv EGFR competition round 1 binding rate 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 2.4: 'Out of these designs, 146 expressed with 5 novel binders (+2 disqualified binders which slipped through the similarity check to existing binders initially).'
Configuration: Adaptyv EGFR competition round 1 selected submissions	Protocol: Adaptyv EGFR competition cell-free expression rate Dataset: Adaptyv EGFR competition round 1 tested designs	73% Proportion (designs expressing above the 0.02 microgram per millilitre threshold, out of designs selected for testing) percent · higher Uncertainty: Not reported by the source: No interval is printed. 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 Adaptyv EGFR competition round 1 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 2.4: 'The expression rate of 73% was about on par for the design methods commonly in the field'
Configuration: Adaptyv EGFR competition round 1 selected submissions	Protocol: Adaptyv EGFR competition BLI binding screen Dataset: Adaptyv EGFR competition round 1 tested designs	2.5% (5/201) Hit rate (novel binders confirmed by BLI, out of designs selected for testing; excludes two binders later disqualified for similarity to an existing binder) percent · higher Uncertainty: Not reported by the source: No interval is printed. 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 Adaptyv EGFR competition round 1 binding rate 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 2.4: 'previous work on de novo binders to EGFR achieved an 0.01% hit rate versus the 2.5% (5/201) we had observed in R1'
Configuration: Adaptyv EGFR competition round 1 selected submissions	Protocol: Adaptyv EGFR competition BLI binding screen Dataset: Adaptyv EGFR competition round 1 tested designs	3% Hit rate (designs confirmed as binders by BLI, out of designs selected for testing, as stated in Section 4.2; Section 2.4 prints 2.5% (5/201) for the same round) percent · higher Uncertainty: Not reported by the source: No interval is printed. 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 Adaptyv EGFR competition round 1 binding rate 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 4.1: 'from 3% in the first round to 13% (Figure 8)'

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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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Stable ID: uc-binder-20261022-config-adaptyv-crowd-r1

areas: proteins-complexes; protein-structure
contexts: research
method types: specialist
access reuse: Entrant designs, tested by a third-party laboratory.
foundation model eligible: false
limitations: Half the tested set was hand-picked by the organisers to increase diversity across design methods, so it is not a sample of any method's output.
method role: pooled submissions
parameters: 726 submissions from about 50 designers; sequences under 200 residues, at least 10 residues from a published binder, natural amino acids and single chain; ranked by interface predicted aligned error (iPAE) from AlphaFold2-Multimer
reported name: R1
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: Top 100 by iPAE plus 101 selected by hand, from 726 submissions.
source locator: Sections 2.1, 2.2 and 2.4
version: Adaptyv EGFR Binder Design Competition round 1

Related records

configuration of: Crowdsourced EGFR binder submissions (Adaptyv competition)
system: Adaptyv EGFR competition round 1 binding rate
system: Adaptyv EGFR competition round 1 expression rate

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