Author

Joseph Valencia

Oregon State UniversityORCID 0000-0001-9199-5573Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 2 Approach:deep learning· 1 Research Focus:differential expression· 1 Assay:DNA methylation· 1 Organism:plant (other)· 1 Assay:proteomics· 1 Approach:transformer / foundation model· 1 Research Focus:variant calling· 1

Frequent Co-Authors

David A. HendrixiD· 1 shared Hani Z. GirgisiD· 1 shared

Activity by Year

2019-2023 · peak 1/yr

Co-Author Collaboration Network

2 top collaborators · 0 mutual co-author links

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1 shared paperBioinformatics

David A. HendrixORCID

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2 papers

Recent·Most cited

BioinformaticsPLoS Computational BiologyPeer-reviewedOct 12, 2023

Improving deep models of protein-coding potential with a Fourier-transform architecture and machine translation task

Joseph Valencia, David A. Hendrix

The paper improves protein-coding potential prediction using a Fourier-transform inspired architecture and a machine translation task, showing better classification performance than traditional methods.

6 citations

DNA methylationproteomics

BioinformaticsBMC GenomicsPeer-reviewedJun 3, 2019

LtrDetector: A modern tool-suite for detecting long terminal repeat retrotransposons de-novo on the genomic scale

Joseph Valencia, Hani Z. Girgis

LtrDetector detects long terminal repeat retrotransposons de-novo in plant genomes with higher sensitivity and lower false positives than existing tools.

24 citations

plant (other)whole-genome sequencing