Publications by authors named "Rene Warren"

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ntRoot: computational inference of human ancestry at scale from genomic data.
René L Warren, Lauren Coombe, Johnathan Wong, Parham Kazemi, Inanc Birol

Bioinform Adv· December 2025

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ntSynt: multi-genome synteny detection using minimizer graph mappings.
Lauren Coombe, Parham Kazemi, Johnathan Wong, Inanc Birol, René L Warren

BMC Biol· December 2025

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Conserved Sequence Identification Within Large Genomic Datasets Using 'Unikseq2': Application in Environmental DNA Assay Development.
Mark Louie D Lopez, René L Warren, Michael J Allison, Lauren Coombe, Jacob J Imbery

Mol Ecol Resour· October 2025

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Antimicrobial peptides with high bioactivity against MDR isolates: Addressing public health concerns.
Ali Salehi, Anat Yanai, Amelia Richter, Chenkai Li, Darcy Sutherland, René L Warren

Microb Pathog· October 2025

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Monitoring marine pollution effects through targeted environmental DNA (eDNA) testing in the Pacific northwest.
Neha Acharya-Patel, Karen Cram, Emma T Groenwold, Hajeong Lee, Abigail G Keller, Rene L Warren

Mar Pollut Bull· July 2025

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Correction: Streaming Long-Read Sequence Alignments for HLA Predictions Using HLAminer.
René L Warren, Inanc Birol

Curr Protoc· May 2025

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Mining the UniProtKB/Swiss-Prot database for antimicrobial peptides.
Chenkai Li, Darcy Sutherland, Ali Salehi, Amelia Richter, Diana Lin, René L Warren

Protein Sci· April 2025

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GoldPolish-target: targeted long-read genome assembly polishing.
Emily Zhang, Lauren Coombe, Johnathan Wong, René L Warren, Inanç Birol

BMC Bioinformatics· March 2025

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Streaming Long-Read Sequence Alignments for HLA Predictions Using HLAminer.
René L Warren, Inanc Birol

Curr Protoc· March 2025

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De novo synthetic antimicrobial peptide design with a recurrent neural network.
Chenkai Li, Darcy Sutherland, Amelia Richter, Lauren Coombe, Anat Yanai, René L Warren

Protein Sci· August 2024

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Structure-aware deep learning model for peptide toxicity prediction.
Hossein Ebrahimikondori, Darcy Sutherland, Anat Yanai, Amelia Richter, Ali Salehi, René L Warren

Protein Sci· July 2024

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Establishing association between HLA-C*04:01 and severe COVID-19.
René L Warren, Rohan Abraham, Marc Calingo, Jean-Michel Garant, Steven J M Jones

HLA· January 2024

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Assembly and annotation of the black spruce genome provide insights on spruce phylogeny and evolution of stress response.
Theodora Lo, Lauren Coombe, Kristina K Gagalova, Alex Marr, René L Warren

G3 (Bethesda)· December 2023

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aaHash: recursive amino acid sequence hashing.
Johnathan Wong, Parham Kazemi, Lauren Coombe, René L Warren, Inanç Birol

Bioinform Adv· November 2023

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Genomic virulence features of Beauveria bassiana as a biocontrol agent for the mountain pine beetle population.
Janet X Li, Kleinberg X Fernandez, Carol Ritland, Sharon Jancsik, Daniel B Engelhardt, René L Warren

BMC Genomics· July 2023

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aaHash: recursive amino acid sequence hashing.
Johnathan Wong, Parham Kazemi, Lauren Coombe, René L Warren, Inanç Birol

bioRxiv· May 2023

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Linear time complexity de novo long read genome assembly with GoldRush.
Johnathan Wong, Lauren Coombe, Vladimir Nikolić, Emily Zhang, Ka Ming Nip, René L Warren

Nat Commun· May 2023

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ntLink: A Toolkit for De Novo Genome Assembly Scaffolding and Mapping Using Long Reads.
Lauren Coombe, René L Warren, Johnathan Wong, Vladimir Nikolic, Inanc Birol

Curr Protoc· April 2023

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Characterization and simulation of metagenomic nanopore sequencing data with Meta-NanoSim.
Chen Yang, Theodora Lo, Ka Ming Nip, Saber Hafezqorani, René L Warren

Gigascience· March 2023

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Models and data of AMPlify: a deep learning tool for antimicrobial peptide prediction.
Chenkai Li, René L Warren, Inanc Birol

BMC Res Notes· February 2023

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Associating Biological Activity and Predicted Structure of Antimicrobial Peptides from Amphibians and Insects.
Amelia Richter, Darcy Sutherland, Hossein Ebrahimikondori, Alana Babcock, Nathan Louie, René L Warren

Antibiotics (Basel)· November 2022

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ntHash2: recursive spaced seed hashing for nucleotide sequences.
Parham Kazemi, Johnathan Wong, Vladimir Nikolić, Hamid Mohamadi, René L Warren

Bioinformatics· October 2022

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The western redcedar genome reveals low genetic diversity in a self-compatible conifer.
Tal J Shalev, Omnia Gamal El-Dien, Macaire M S Yuen, Shu Shengqiang, Shaun D Jackman, René L Warren

Genome Res· October 2022

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Mining Amphibian and Insect Transcriptomes for Antimicrobial Peptide Sequences with rAMPage.
Diana Lin, Darcy Sutherland, Sambina Islam Aninta, Nathan Louie, Ka Ming Nip, René L Warren

Antibiotics (Basel)· July 2022

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