ArticlePloS one2025
ReadSeeker: A DNABERT based de-novo read-level gene predictor.
Article in PloS one, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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2 authors.
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Abstract
ReadSeeker, a newly fine-tuned, DNABERT-based model, differentiates NGS short reads into protein-coding (CDS) and non-protein-coding (non-CDS) categories without requiring known reference sequences. For model training, extensive datasets encompassing viral, bacterial, and mammalian sequences where used. Training involved generating approximately 3 million synthetic reads from annotated genomic elements. Performance evaluation on real-world datasets, including human, viral, and bacterial samples, revealed ReadSeeker's high accuracy, exceeding 94%, with ROC-AUC scores above 98% in most cases.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.