Author

Daniel P. Farrell

University of WashingtonORCID 0000-0001-7024-7998Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 2 Research Focus:benchmarking· 1 Assay:cryo-EM· 1 Approach:deep learning· 1 Research Focus:drug response / drug discovery· 1 Research Focus:protein structure prediction· 1

Frequent Co-Authors

Frank DiMaioiD· 2 shared Ajasja LjubetičiD· 1 shared Amanda L. LoshbaughiD· 1 shared Amelie SteiniD· 1 shared Ameya HarmalkariD· 1 shared Andrew Leaver‐FayiD· 1 shared Andrew M. WatkinsiD· 1 shared Andrew MuenksiD· 1 shared

Activity by Year

2021-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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2 shared papersBiochemistry

Frank DiMaioORCID

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2 papers

Recent·Most cited

BiochemistryStructurePeer-reviewedJul 25, 2025

Automated identification of small molecules in cryo-electron microscopy data with density- and energy-guided evaluation

Andrew Muenks, Daniel P. Farrell, Guangfeng Zhou, Frank DiMaio

This paper introduces EMERALD-ID, a method for identifying small molecules in cryo-EM data, achieving 43% exact identification and 66% close identification of common ligands.

1 citation

cryo-EMdeep learning

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BioinformaticsNature CommunicationsPeer-reviewedNov 29, 2021

Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks

Julia Koehler Leman, Sergey Lyskov, Steven Macauley Lewis…·Richard Bonneau

The paper presents a framework for ensuring reproducibility in bio-macromolecular modeling through automated benchmarks and a test server, demonstrating its utility for Rosetta and other tools.

26 citations

experimental assaybenchmarking

𝕏 PostBluesky