Search Results - "Hiranuma, Naozumi"

Improved protein structure refinement guided by deep learning based accuracy estimation by Hiranuma, Naozumi, Park, Hahnbeom, Baek, Minkyung, Anishchenko, Ivan, Dauparas, Justas, Baker, David

“…We develop a deep learning framework (DeepAccNet) that estimates per-residue accuracy and residue-residue distance signed error in protein models and uses…”
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Protein tertiary structure prediction and refinement using deep learning and Rosetta in CASP14 by Anishchenko, Ivan, Baek, Minkyung, Park, Hahnbeom, Hiranuma, Naozumi, Kim, David E., Dauparas, Justas, Mansoor, Sanaa, Humphreys, Ian R., Baker, David

“…The trRosetta structure prediction method employs deep learning to generate predicted residue‐residue distance and orientation distributions from which 3D…”
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Protein Structure Accuracy Prediction with Deep Learning and Its Application to Structure Prediction and Design by Hiranuma, Naozumi

“…Understanding the rules of protein structure folding has always been one of the central goals in computational biology. Deep learning is gaining popularity in…”
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AIControl: replacing matched control experiments with machine learning improves ChIP-seq peak identification by Hiranuma, Naozumi, Lundberg, Scott M, Lee, Su-In

“…ChIP-seq is a technique to determine binding locations of transcription factors, which remains a central challenge in molecular biology. Current practice is to…”
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Modeling SARS‐CoV‐2 proteins in the CASP‐commons experiment by Kryshtafovych, Andriy, Moult, John, Billings, Wendy M., Della Corte, Dennis, Fidelis, Krzysztof, Kwon, Sohee, Olechnovič, Kliment, Seok, Chaok, Venclovas, Česlovas, Won, Jonghun

“…Critical Assessment of Structure Prediction (CASP) is an organization aimed at advancing the state of the art in computing protein structure from sequence. In…”
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Sexual ancestors generated an obligate asexual and globally dispersed clone within the model diatom species Thalassiosira pseudonana by Koester, Julie A., Berthiaume, Chris T., Hiranuma, Naozumi, Parker, Micaela S., Iverson, Vaughn, Morales, Rhonda, Ruzzo, Walter L., Armbrust, E. Virginia

“…Sexual reproduction roots the eukaryotic tree of life, although its loss occurs across diverse taxa. Asexual reproduction and clonal lineages persist in these…”
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