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  • Databases/Tools

NAR database/Web Server and OBRC

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  1. APACE: AlphaFold2 and advanced computing as a service for accelerated discovery in biophysics.
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    Journal: Proc Natl Acad Sci U S A. 2024 Jul 02;121(27)
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  2. Protein loop structure prediction by community-based deep learning and its application to antibody CDR H3 loop modeling.
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    Journal: PLoS Comput Biol. 2024 Jun;20(6)
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  3. MARS and RNAcmap3: The Master Database of All Possible RNA Sequences Integrated with RNAcmap for RNA Homology Search.
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    Journal: Genomics Proteomics Bioinformatics. 2024 May 09;22(1)
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  4. Structure-aware machine learning strategies for antimicrobial peptide discovery.
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    Journal: Sci Rep. 2024 May 25;14(1)
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  5. Alpha&ESMhFolds: A Web Server for Comparing AlphaFold2 and ESMFold Models of the Human Reference Proteome.
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    Journal: J Mol Biol. 2024 Sep 01;436(17)
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  6. Amino acid propensities for secondary structures and its variation across protein structures using exhaustive PDB data.
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    Journal: Comput Biol Chem. 2024 Jun;110
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  7. Enhancing cryo-EM structure prediction with DeepTracer and AlphaFold2 integration.
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    Journal: Brief Bioinform. 2024 Mar 27;25(3)
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  8. SPDesign: protein sequence designer based on structural sequence profile using ultrafast shape recognition.
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    Journal: Brief Bioinform. 2024 Mar 27;25(3)
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  9. Predicting the effect of chemicals on fruit using graph neural networks.
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    Journal: Sci Rep. 2024 Apr 08;14(1)
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  10. RNA3DB: A structurally-dissimilar dataset split for training and benchmarking deep learning models for RNA structure prediction.
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    Journal: J Mol Biol. 2024 Sep 01;436(17)
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