Author

Jonathan E. Allen

Lawrence Livermore National Laboratory

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 1 Pharmacology & Toxicology· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Research Focus:benchmarking· 1 Research Focus:deconvolution· 1 Research Focus:drug response / drug discovery· 1 Organism:human· 1 Assay:metagenomics· 1 Assay:protein structure· 1 Approach:statistical model· 1

Frequent Co-Authors

Aditya RanganathiD· 1 shared Heesung ShimiD· 1 shared Hyojin KimiD· 1 shared Maya B. Gokhale· 1 shared Sasha K. Ames· 1 shared Shea N. Gardner· 1 shared Tom R. Slezak· 1 shared

Activity by Year

2016-2025 · peak 1/yr

Co-Author Collaboration Network

7 top collaborators · 9 mutual co-author links

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1 shared paperPharmacology & Toxicology

Aditya RanganathORCID

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2 papers

Recent·Most cited

SLAB: Simultaneous Labeling And Binding affinity prediction for protein-ligand structures

Aditya Ranganath, Hyojin Kim, Heesung Shim, Jonathan E. Allen

The paper introduces a joint regression and classification model to predict protein-ligand binding affinity and activity, improving accuracy using PDBbind and flavivirus protease datasets.

Digital Discovery · Dec 3, 2025Peer-reviewedPharmacology & Toxicology

Searching more genomic sequence with less memory for fast and accurate metagenomic profiling

Shea N. Gardner, Sasha K. Ames, Maya B. Gokhale, Tom R. Slezak, Jonathan E. Allen

LMAT-ML improves metagenomic profiling accuracy and coverage by reducing false positives and negatives compared to other low-memory tools.

bioRxiv · Jan 14, 2016 · PreprintBioinformatics