Machine learning for computational and systems biology

ISSN: 1471-2105 (Online)

In this topical collection (39 articles)

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  1. Research article

    Modeling aspects of the language of life through transfer-learning protein sequences

    Michael Heinzinger, Ahmed Elnaggar, Yu Wang, Christian Dallago… Article:723
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  2. Research Article

    Benchmarking machine learning models for late-onset alzheimer’s disease prediction from genomic data

    Javier De Velasco Oriol, Edgar E. Vallejo, Karol Estrada… Article:709
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  3. Methodology Article

    A pan-cancer somatic mutation embedding using autoencoders

    Martin Palazzo, Pierre Beauseroy, Patricio Yankilevich Article:655
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  4. Research article

    A novel target convergence set based random walk with restart for prediction of potential LncRNA-disease associations

    Jiechen Li, Xueyong Li, **ang Feng, Bing Wang, Bihai Zhao, Lei Wang Article:626
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  5. Methodology Article

    Attention mechanism enhanced LSTM with residual architecture and its application for protein-protein interaction residue pairs prediction

    Jiale Liu, **nqi Gong Article:609
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  6. Methodology article

    Hybrid attentional memory network for computational drug repositioning

    Jieyue He, **nxing Yang, Zhuo Gong, lbrahim Zamit Article:566
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  7. Methodology article

    A novel computational model for predicting potential LncRNA-disease associations based on both direct and indirect features of LncRNA-disease pairs

    Yubin **ao, Zheng **ao, **ang Feng, Zhi** Chen, Linai Kuang… Article:555
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  8. Methodology article

    Drug–target interaction prediction using unifying of graph regularized nuclear norm with bilinear factorization

    Ali Ghanbari Sorkhi, Zahra Abbasi, Majid Iranpour Mobarakeh… Article:555
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  9. Methodology article

    CGINet: graph convolutional network-based model for identifying chemical-gene interaction in an integrated multi-relational graph

    Wei Wang, ** Yang, Chengkun Wu, Canqun Yang Article:544
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  10. Research Article

    Network inference with ensembles of bi-clustering trees

    Konstantinos Pliakos, Celine Vens Article:525
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  11. Research article

    DeepciRGO: functional prediction of circular RNAs through hierarchical deep neural networks using heterogeneous network features

    Lei Deng, Wei Lin, Jiacheng Wang, **gpu Zhang Article:519
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  12. Methodology article

    A sequence embedding method for enzyme optimal condition analysis

    **angjun Li, Zhixin Dou, Yuqing Sun, Lushan Wang, Bin Gong, Lin Wan Article:512
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  13. Research article

    Quantitative prediction model for affinity of drug–target interactions based on molecular vibrations and overall system of ligand-receptor

    **an-rui Wang, Ting-ting Cao, Cong Min Jia, Xue-mei Tian, Yun Wang Article:497
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  14. Database

    A machine learning-based service for estimating quality of genomes using PATRIC

    Bruce Parrello, Rory Butler, Philippe Chlenski, Robert Olson… Article:486
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  15. Research Article

    Machine learning for discovering missing or wrong protein function annotations

    Felipe Kenji Nakano, Mathias Lietaert, Celine Vens Article:485
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  16. Methodology article

    Identifying protein complexes based on an edge weight algorithm and core-attachment structure

    Rongquan Wang, Guixia Liu, Caixia Wang Article:471
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  17. Methodology article

    MCCMF: collaborative matrix factorization based on matrix completion for predicting miRNA-disease associations

    Tian-Ru Wu, Meng-Meng Yin, Cui-Na Jiao, Ying-Lian Gao… Article:454
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  18. Methodology article

    SWnet: a deep learning model for drug response prediction from cancer genomic signatures and compound chemical structures

    Zhaorui Zuo, Penglei Wang, **aowei Chen, Li Tian, Hui Ge, Dahong Qian Article:434
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  19. Research article

    An elastic-net logistic regression approach to generate classifiers and gene signatures for types of immune cells and T helper cell subsets

    Arezo Torang, Paraag Gupta, David J. Klinke II Article:433
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  20. Methodology article

    RF_Purify: a novel tool for comprehensive analysis of tumor-purity in methylation array data based on random forest regression

    Pascal David Johann, Natalie Jäger, Stefan M. Pfister, Martin Sill Article:428
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