Author

Nafiseh Jafarzadeh

University of California, Santa CruzORCID 0000-0002-1816-2994Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Genomics· 1

Signature Assays, Organisms & Methods

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Research Focus:database / resource· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Assay:DNA methylation· 1 Research Focus:eQTL / molecular QTL mapping· 1 Approach:experimental assay· 1 Research Focus:genome assembly· 1 Approach:graph neural network· 1

Frequent Co-Authors

Adam FrankishiD· 2 shared Andrea GuarracinoiD· 2 shared Benedict PateniD· 2 shared Bida GuiD· 2 shared Bonhwang KooiD· 2 shared Casey Andrews· 2 shared Cristian GrozaiD· 2 shared Danilo DubocaniniD· 2 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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2 shared papersBioinformatics

Adam FrankishORCID

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3 papers

Recent·Most cited

BioinformaticsBioinformaticsPeer-reviewedOct 24, 2026

GBZ-base and GAF-base: Indexed pangenome file formats

Jouni Sirén, Benedict Paten, Derek Albracht…·Sergey Koren

The paper introduces GBZ-base and GAF-base, indexed pangenome file formats for efficient subgraph and alignment extraction.

DOI 10.1093/bioinformatics/btag796

database / resource

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GenomicsbioRxivPreprintJul 22, 2026

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HPRC2: A human pangenome reference with near-complete coverage of common genetic variation

Julian Lucas, Prajna Hebbar, Wen‐Wei Liao…·Jane E. Loveland

460 haplotypes from 230 genomes, selected to maximize common-variant coverage, capture 99.43% of All of Us common small variants and halve structurally unreliable regions and base errors versus HPRC1.

10 citations

humanlong-read sequencing

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BioinformaticsbioRxivPreprintJul 5, 2025

An Efficient Graph Algorithm for Diploid Local Ancestry Inference

Nafiseh Jafarzadeh, Jordan M. Eizenga, Benedict Paten

The paper introduces a method to construct diploid sequence graphs from haploid sequence graphs to represent haplotype pairings and their similarity.

1 citation

graph neural networkstatistical model

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