Author

Jose L. Figueroa

University of North Carolina at Charlotte

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· 5 Microbiology· 1

Signature Assays, Organisms & Methods

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Research Focus:database / resource· 3 Research Focus:software / tool· 3 Approach:statistical model· 3 Assay:whole-genome sequencing· 3 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Organism:bacteria (other)· 1 Research Focus:benchmarking· 1

Frequent Co-Authors

Richard Allen White IIIiD· 6 shared Madeline BellangeriD· 3 shared Lisa K. TiemanniD· 2 shared Maren FrieseniD· 2 shared Ajay PanyalaiD· 1 shared Andra BuchaniD· 1 shared Andrew Redinbo· 1 shared Bryan Fulghum· 1 shared

Activity by Year

2023-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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6 shared papersBioinformatics

Richard Allen White IIIORCID

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Author profile →

6 papers

Recent·Most cited

HydraMPP: A lightweight library for distributed massive parallel processing in Python - threading at scale.

Jose L. Figueroa, Richard Allen White III

The paper introduces HydraMPP, a lightweight Python library for distributed massive parallel processing that addresses limitations of existing frameworks like Ray.

bioRxiv · Jun 8, 2026 · PreprintBioinformatics

Resolving and Quantifying Viral-Like Particles via Blind Deconvolution

Jose L. Figueroa, Sadie M. Hollenack, Madeline Bellanger, Bryan Fulghum, Pieter T. Visscher, Richard Allen White III

This paper introduces EpiVirQuant, a computer vision framework for automated enumeration and sizing of viral-like particles, showing 18% higher detection than manual counting.

BMC Methods · Feb 8, 2026Peer-reviewedBioinformatics

Unlocking the genomic repertoire of a cultivated megaphage

Andra Buchan, Stephanie Wiedman, Kevin Lambirth, Madeline Bellanger, Jose L. Figueroa, Elena T. Wright, Patil Shivprasad Suresh, Qibin Zhang, Julie A. Thomas, Philip Serwer, Richard Allen White III

This paper characterizes the genomic and proteomic features of the only cultivated megaphage, phage G, using multiomics and AI, revealing its unique structure, functional genes, and cryptic regions.

npj Viruses · Sep 30, 2025Peer-reviewedMicrobiology

NFixDB (Nitrogen Fixation DataBase) - A Comprehensive Integrated Database for Robust 'Omics Analysis of Diazotrophs

Madeline Bellanger, Jose L. Figueroa, Lisa K. Tiemann, Maren Friesen, Richard Allen White III

NFixDB is a comprehensive integrated database for diazotrophs that includes nitrogenase genes and ribosomal operons, offering searchable HMMs and SQL queries for omics analysis.

NAR Genomics and Bioinformatics · Apr 4, 2024Peer-reviewedBioinformatics

MerCat2: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from omics data

Jose L. Figueroa, Andrew Redinbo, Ajay Panyala, Sean Colby, Maren Friesen, Lisa K. Tiemann, Richard Allen White III

MerCat2 analyzes omics data properties through k-mer counting and diversity metrics without requiring a database.

Bioinformatics Advances · Jan 1, 2024Peer-reviewedBioinformatics

MetaCerberus: distributed highly parallelized scalable HMM-based implementation for robust functional annotation across the tree of life

Jose L. Figueroa, Eliza Dhungel, Cory Brouwer, Richard Allen White III

MetaCerberus provides a scalable HMM-based tool for functional gene annotation across genomes and metacommunities, outperforming existing tools in speed and accuracy.

bioRxiv · Aug 10, 2023 · PreprintBioinformatics