• CLC-DB [Database]

    An open-source database including chiral ligands/catalysts of different chiral types.

    Ref: G Yu, K Yu, X Wang, X Huo*, Y Yang*. CLC-DB: an online open-source database of chiral ligands and catalysts. ChemRxiv. 2024; doi:10.26434/chemrxiv-2024-h2rdl.

  • ReaMVP [Code]

    A multi-view pre-training model for predicting chemical reaction yields.

    Ref: R Shi, G Yu, X Huo, Y Yang*. Prediction of chemical reaction yields with large-scale multi-view pre-training. Journal of Cheminformatics 16, 22 (2024).

  • RBPsuite [Server]

    Tools for RNA-protein binding prediction.

    Ref1: Xiaoyong Pan, Yi Fang, XianFeng Li, Yang Yang, and Hong-Bin Shen. RBPsuite: RNA-protein binding sites prediction suite based on deep learning. BMC Genomics, 2020, 21:884.

    Ref2: K Zhang, X Pan, Y Yang*, HB Shen, CRIP: predicting circRNA-RBP interaction sites using a codon-based encoding and hybrid deep neural networks. RNA (2019) 25:1604–1615.

  • lncLocator [Server]

    A predictor for lncRNA subcellular localization.

    Ref: Z Cao, X Pan, Y Yang, Y Huang, and HB Shen. The lncLocator: a subcellular localization predictor for long non-coding RNAs based on a stacked ensemble classifier, Bioinformatics, 2018.

  • AnnoFly [Server][Code]

    Annotation of Drosophila Embryonic Images Based on an Attention-Enhanced RNN Model.

    Ref: Y Yang, M Zhou, Q Fang, Hong-Bin Shen. (2019). Annofly: Annotating drosophila embryonic images based on an attention-enhanced RNN model. Bioinformatics, 35(16), no. 15, 2019, pp 2834–2842.

  • MiRGOFS [Server]

    A GO-based functional similarity measure for miRNAs.

    Ref: Y Yang*, X Fu, W Qu, Y Xiao, HB Shen*, MiRGOFS: A GO-based functional similarity measure for miRNAs, with applications to the prediction of miRNA subcellular localization and miRNA-disease association, Bioinformatics, 34(20), 2018.

  • Hum-mPLoc 3.0 [Server]

    A predictor for human protein subcellular localization.

    Ref: H Zhou, Y Yang, HB Shen, "Hum-mPLoc 3.0: Prediction enhancement of human protein subcellular localization through modeling the hidden correlations of gene ontology and functional domain features", Bioinformatics, 2017, 33: 843-853.