Evidence map›Paper›PMID 41724677›Full record

ArticlemAbs2026

Ginkgo Datapoints Antibody Developability Competition outcomes: limited model performance and a call for data standardization.

Lood van Niekerk, Joshua Moller, Seth Ritter, Porfirio Quintero-Cadena, Rich Cohen, Georgia Channing, Michael Chungyuon, Laura Rand, Alexander Smith, Aanal Bhatt and 25 more

Erratum issuedAbstract read
In one paragraph

Article in mAbs, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Article
  2. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

35 authors.

Lood van NiekerkGinkgo Bioworks Inc, Boston, MA, USA.
Joshua MollerGinkgo Bioworks Inc, Boston, MA, USA.
Seth RitterGinkgo Bioworks Inc, Boston, MA, USA.
Porfirio Quintero-CadenaGinkgo Bioworks Inc, Boston, MA, USA.ORCID 0000-0003-0067-5844
Rich CohenGinkgo Bioworks Inc, Boston, MA, USA.
Georgia ChanningHugging Face, New York City, NY, USA.ORCID 0009-0001-6354-7527
Michael ChungyuonWhiting School of Engineering, Johns Hopkins University, Baltimore, MD, USA.
Laura RandGinkgo Bioworks Inc, Boston, MA, USA.
Alexander SmithGinkgo Bioworks Inc, Boston, MA, USA.ORCID 0009-0009-3298-4431
Aanal BhattGinkgo Bioworks Inc, Boston, MA, USA.ORCID 0000-0002-0534-9274
Yolaine PierreGinkgo Bioworks Inc, Boston, MA, USA.
Blake HarrisGinkgo Bioworks Inc, Boston, MA, USA.
Xiang AoGinkgo Bioworks Inc, Boston, MA, USA.ORCID 0009-0002-3565-9473
Lucia GrippoGinkgo Bioworks Inc, Boston, MA, USA.ORCID 0000-0002-0058-9279
Maximilian SchwenkGinkgo Bioworks Inc, Boston, MA, USA.
Adam RosenbaumGinkgo Bioworks Inc, Boston, MA, USA.ORCID 0009-0003-2316-477X
Olga AllenGinkgo Bioworks Inc, Boston, MA, USA.
Nimra AsiBoehringer Ingelheim, Ridgefield, CT, USA.
Jiang ZhuX UNFOLD LLC, Boston, MA, USA.
Aviral SinghMicrocrispr Pvt. Ltd, Chala, India.ORCID 0009-0001-4654-1182
Daksh SammiMicrocrispr Pvt. Ltd, Chala, India.ORCID 0009-0007-7780-5674
Rushikesh JadhavMicrocrispr Pvt. Ltd, Chala, India.ORCID 0009-0007-8553-2311
Antonín DušekDepartment of Informatics and Chemistry, UCT-Prague, Prague, Czechia.ORCID 0009-0007-5461-7734
Shyam ChandraDepartment of Biomedical Informatics, Harvard Medical School, Boston, MA, USA.ORCID 0009-0008-9986-3303
Valentin BadeaDepartment of Biomedical Informatics, Harvard Medical School, Boston, MA, USA.ORCID 0009-0001-3943-4637
Nels ThorsteinsonChemical Computing Group, Montreal, QC, Canada.ORCID 0000-0001-8333-0045
Nathaniel BlalockBiomedical Engineering, Duke University, Durham, NC, USA.ORCID 0000-0001-7993-7936
Jeonghyeon KimBiomedical Engineering, Duke University, Durham, NC, USA.ORCID 0009-0001-4468-5035
Oliver M TurnbullDepartment of Statistics, University of Oxford, Oxford, UK.ORCID 0000-0002-0239-1207
Ameya KulkarniBiomedical Engineering, Duke University, Durham, NC, USA.
Vivek KoharUnibio Intelligence, Boston, MA, USA.ORCID 0000-0003-1813-1597
Netsanet GebremedhinTensorBio Dynamics, Boston, MA, USA.
Charlotte M DeaneDepartment of Statistics, University of Oxford, Oxford, UK.ORCID 0000-0003-1388-2252
Peter M TessierChemical Engineering, University of Michigan, Ann Arbor, MI, USA.ORCID 0000-0002-3220-007X
Ammar ArsiwalaGinkgo Bioworks Inc, Boston, MA, USA.ORCID 0000-0002-5121-9163

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The Ginkgo Datapoints Antibody Developability (AbDev) Competition, a blinded benchmark for developability prediction characterized entirely on a single, industrial-scale experimental platform, was conducted from September 8 to November 18, 2025. We benchmarked predictors across five biophysical properties - hydrophobicity, thermostability, self-association, expression titer, and polyreactivity - using a public training set of 246 clinical antibodies and a blinded, held-out test set of 80 antibodies. We received submissions from 113 teams spanning 25 countries, 38 companies, and 39 universities. Winning submissions differed by assay. Top Spearman's ρ values on the test set reached 0.708 (hydrophobicity), 0.392 (thermostability), 0.356 (polyreactivity), 0.337 (self-association), and 0.310 (titer). Cross-validation scores from the public training set consistently exceeded held-out test performance, indicating overfitting and limited out-of-distribution generalization. Together, these results provide a standardized snapshot of current antibody developability modeling capabilities and highlight a key bottleneck: available datasets are too small and heterogeneous to support robust, assay-spanning prediction. Meaningful progress will require larger, standardized, and diverse experimental datasets - with harmonized protocols and rich metadata - to train and validate models that generalize reliably for future antibody discovery campaigns.

Indexed as

Antibodies, MonoclonalHumansHydrophobic and Hydrophilic InteractionsAntibodies, MonoclonalAntibodycompetitiondevelopability

Identifiers

PMID41724677
PMCPMC12928636

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.