Author

Shahiid Kiyaga

Infectious Diseases InstituteORCID 0000-0002-6380-4714Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:plant (other)· 3 Approach:experimental assay· 2 Research Focus:variant calling· 2 Assay:whole-genome sequencing· 2 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Research Focus:genome assembly· 1 Approach:statistical model· 1

Frequent Co-Authors

Andrés Aranda-DíaziD· 3 shared Bienvenu NsengimaanaiD· 3 shared Bryan GreenhouseiD· 3 shared Francis D SemakubaiD· 3 shared Innocent WiringilimaanaiD· 3 shared Isaac SsewanyanaiD· 3 shared Jessica J. BriggsiD· 3 shared Melissa D. ConradiD· 3 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersGenomics

Andrés Aranda-DíazORCID

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3 papers

Recent·Most cited

Whole-genome characterization of Plasmodium falciparum population structure and drug resistance across Uganda and neighboring countries

Shahiid Kiyaga, Monica Mbabazi, Thomas Katairo, Victor Asua, Francis D Semakuba, Bienvenu Nsengimaana, Stephen Tukwasibwe, Innocent Wiringilimaana, Jackie Nakasaanya, Jerry Mulondo, Eric Watyekele, Catherine Maiteki‐Sebuguzi, David Patrick Kateete, Joyce Nakatumba Nabende, Daudi Jjingo, , Jessica J. Briggs

The paper characterizes the population structure and drug resistance of Plasmodium falciparum in Uganda and neighboring countries using whole-genome data, identifying key resistance-associated haplotypes.

bioRxiv · Sep 30, 2026 · PreprintGenomics

PfPHAST: Plasmodium falciparum Public Health Amplicon Sequencing Tool, a Streamlined Panel for Malaria Genomic Surveillance

Francis D Semakuba, Bienvenu Nsengimaana, Monica Mbabazi, Thomas Katairo, Kathryn Murie, Nicholas J. Hathaway, Innocent Wiringilimaana, John Vester Muwanika, Kore Lum, Milya Davlieva, Victor Asua, Shahiid Kiyaga, Stephen Tukwasibwe, Jackie Nakasaanya, Karen B Achom, , Jessica J. Briggs

PfPHAST is a streamlined amplicon sequencing panel for malaria genomic surveillance, offering better quality control and cost efficiency than MAD4HatTeR without sacrificing performance on shared targets.

bioRxiv · Sep 29, 2026 · PreprintGenomics

Sensitive and modular amplicon sequencing of Plasmodium falciparum diversity and resistance for research and public health

Andrés Aranda-Díaz, Eric Neubauer Vickers, Kathryn Murie, Brian Palmer, Nicholas J. Hathaway, Inna Gerlovina, Simone Salvador Boene, Manuel II García-Ulloa, Pau Cisteró, Thomas Katairo, Francis D Semakuba, Bienvenu Nsengimaana, Hazel B. Gwarinda, Carla García-Fernández, William Louie, , Bryan Greenhouse

The paper develops MAD4HatTeR, an amplicon sequencing panel and analysis pipeline for detecting Plasmodium falciparum diversity, resistance markers, and gene duplications/deletions, showing high sensitivity and reproducibility across settings.

Scientific Reports · Mar 28, 2025Peer-reviewedGenomics