Author

James Robert Brown

Drexel UniversityORCID 0000-0002-8947-4821Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 1 Research Focus:clustering· 1 Approach:contrastive learning· 1 Research Focus:differential expression· 1 Assay:DNA methylation· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1 Assay:metagenomics· 1

Frequent Co-Authors

Bahrad Ali SokhansanjiD· 2 shared GAIL L. ROSENiD· 2 shared Hyunwoo YooiD· 2 shared Mohammad S. RefahiiD· 2 shared Gavin HearneiD· 1 shared Joshua Chang MelliD· 1 shared Robi Polikar AiD· 1 shared

Activity by Year

2024-2024 · peak 2/yr

Co-Author Collaboration Network

7 top collaborators · 19 mutual co-author links

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2 shared papersBioinformatics

Bahrad Ali SokhansanjORCID

Mutual co-authors in cluster

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintSep 9, 2024

iSeqsSearch: Incremental Protein Search for iBlast/iMMSeqs2/iDiamond

Hyunwoo Yoo, Mohammad S. Refahi, Robi Polikar A…·GAIL L. ROSEN

The paper introduces iMMseqs2 and iDiamond, incremental search tools for protein sequence databases, which maintain high accuracy while reducing computational resources.

DOI 10.1101/2024.09.09.612094

protein sequencestatistical model

𝕏 PostBluesky

GenomicsbioRxivPreprintJul 19, 2024

Scorpio : Enhancing Embeddings to Improve Downstream Analysis of DNA sequences

Mohammad S. Refahi, Bahrad Ali Sokhansanj, Joshua Chang Mell…·GAIL L. ROSEN

Scorpio improves DNA sequence embeddings using contrastive learning, enhancing performance in taxonomic classification, AMR gene detection, and promoter identification across diverse datasets.

1 citation

DNA methylationwhole-genome sequencing

𝕏 PostBluesky