Author

Alexander P. Sweeten

National Institutes of HealthORCID 0000-0002-5316-2973Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:whole-genome sequencing· 6 Organism:human· 5 Approach:statistical model· 4 Research Focus:database / resource· 3 Approach:experimental assay· 3 Organism:mouse· 3 Research Focus:gene regulatory network inference· 2 Research Focus:genome assembly· 2

Frequent Co-Authors

Adam M. PhillippyiD· 5 shared Michael C. SchatziD· 5 shared Arang RhieiD· 4 shared Brandon D. PickettiD· 4 shared Steven J. SolariD· 4 shared Andrea GuarracinoiD· 3 shared DongAhn YooiD· 3 shared Evan E. EichleriD· 3 shared

Activity by Year

2024-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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5 shared papersGenomics

Adam M. PhillippyORCID

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6 papers

Recent·Most cited

Origin and evolution of acrocentric chromosomes in human and great apes

Steven J. Solar, Prajna Hebbar, Leonardo Gomes de Lima, Alexander P. Sweeten, Arang Rhie, Tamara Potapova, Luciana de Gennaro, Andrea Guarracino, Juhyun Kim, Brandon D. Pickett, Benedict Paten, Melissa A. Wilson, Sergey Koren, Erik P. Garrison, Evan E. Eichler, , Adam M. Phillippy

The paper identifies evolutionary processes in acrocentric chromosomes of great apes, including repeat enrichment, inversion, and gene family amplification, with implications for human genomic instability.

bioRxiv · Oct 7, 2026 · PreprintGenomics

AniAnn's: alignment-free annotation of tandem repeat arrays using fast average nucleotide identity estimates

Alexander P. Sweeten, Michael C. Schatz, Adam M. Phillippy

AniAnns annotates tandem repeat arrays by leveraging high ANI between repeat units, improving annotation accuracy and speed across plant and animal genomes.

Bioinformatics · Aug 1, 2026Peer-reviewedBioinformatics

A complete diploid human genome benchmark for personalized genomics

Nancy Fisher Hansen, Nathan J. Dwarshuis, Hyun Joo Ji, Arang Rhie, Hailey Loucks, Glennis A. Logsdon, Mitchell Robert Vollger, Jessica M. Storer, Juhyun Kim, Eleni Adam, Nicolas Altemose, Dmitry Antipov, Mobin Asri, Sofia N. Barreira, Stephanie C. Bohaczuk, , Adam M. Phillippy

T2T-HG002v1.1, a complete diploid HG002 assembly lacking detectable errors over 99.4% of its length, enables genome-based benchmarking of assemblies, sequencing reads, and phased variant calls.

Cell · Aug 1, 2026Peer-reviewedGenomics✦ In-depth digest

Complete sequencing of ape genomes

DongAhn Yoo, Arang Rhie, Prajna Hebbar, Francesca Antonacci, Glennis A. Logsdon, Steven J. Solar, Dmitry Antipov, Brandon D. Pickett, Yana Safonova, Francesco Montinaro, Yanting Luo, Joanna Malukiewicz, Jessica M. Storer, Jiadong Lin, Abigail N Sequeira, , Zhenmiao Zhang

The paper presents haplotype-resolved genomes of six ape species with high accuracy and provides comparative analyses to study evolutionary diversity and gene family evolution.

Nature · Apr 9, 2025Peer-reviewedGenomics

The Complete Sequence and Comparative Analysis of Ape Sex Chromosomes

Kateryna D. Makova, Brandon D. Pickett, Robert S. Harris, Gabrielle A. Hartley, Monika Čechová, Karol Pál, Sergey Nurk, DongAhn Yoo, Qiuhui Li, Prajna Hebbar, Barbara C. McGrath, Francesca Antonacci, Margaux Aubel, Arjun Biddanda, Matthew Borchers, , Adam M. Phillippy

The paper produces gapless assemblies of ape sex chromosomes for five great apes and a lesser ape, revealing divergence in Y chromosomes and evolutionary dynamics.

Nature · May 29, 2024Peer-reviewedGenomics

ModDotPlot - Rapid and interactive visualization of complex repeats

Alexander P. Sweeten, Michael C. Schatz, Adam M. Phillippy

ModDotPlot provides a fast, interactive, alignment-free visualization of genomic repeats, outperforming existing methods in speed and accuracy.

bioRxiv · Apr 15, 2024 · PreprintBioinformatics