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In silico polypharmacology of natural products
Fang, Jiansong, Liu, Chuang, Wang, Qi, Lin, Ping, Cheng, Feixiong
Published in Briefings in bioinformatics (27.11.2018)
Published in Briefings in bioinformatics (27.11.2018)
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TrimNet: learning molecular representation from triplet messages for biomedicine
Li, Pengyong, Li, Yuquan, Hsieh, Chang-Yu, Zhang, Shengyu, Liu, Xianggen, Liu, Huanxiang, Song, Sen, Yao, Xiaojun
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Published in Briefings in bioinformatics (01.07.2021)
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Machine-designed biotherapeutics: opportunities, feasibility and advantages of deep learning in computational antibody discovery
Wilman, Wiktoria, Wróbel, Sonia, Bielska, Weronika, Deszynski, Piotr, Dudzic, Paweł, Jaszczyszyn, Igor, Kaniewski, Jędrzej, Młokosiewicz, Jakub, Rouyan, Anahita, Satława, Tadeusz, Kumar, Sandeep, Greiff, Victor, Krawczyk, Konrad
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Published in Briefings in bioinformatics (18.07.2022)
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Designing antimicrobial peptides using deep learning and molecular dynamic simulations
Cao, Qiushi, Ge, Cheng, Wang, Xuejie, Harvey, Peta J, Zhang, Zixuan, Ma, Yuan, Wang, Xianghong, Jia, Xinying, Mobli, Mehdi, Craik, David J, Jiang, Tao, Yang, Jinbo, Wei, Zhiqiang, Wang, Yan, Chang, Shan, Yu, Rilei
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Published in Briefings in bioinformatics (19.03.2023)
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NeuroPred-FRL: an interpretable prediction model for identifying neuropeptide using feature representation learning
Hasan, Md Mehedi, Alam, Md Ashad, Shoombuatong, Watshara, Deng, Hong-Wen, Manavalan, Balachandran, Kurata, Hiroyuki
Published in Briefings in bioinformatics (05.11.2021)
Published in Briefings in bioinformatics (05.11.2021)
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Comparative analysis of molecular fingerprints in prediction of drug combination effects
Zagidullin, B, Wang, Z, Guan, Y, Pitkänen, E, Tang, J
Published in Briefings in bioinformatics (05.11.2021)
Published in Briefings in bioinformatics (05.11.2021)
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Convolutional neural network-based annotation of bacterial type IV secretion system effectors with enhanced accuracy and reduced false discovery
Hong, Jiajun, Luo, Yongchao, Mou, Minjie, Fu, Jianbo, Zhang, Yang, Xue, Weiwei, Xie, Tian, Tao, Lin, Lou, Yan, Zhu, Feng
Published in Briefings in bioinformatics (01.09.2020)
Published in Briefings in bioinformatics (01.09.2020)
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Clinical significance and immunogenomic landscape analyses of the immune cell signature based prognostic model for patients with breast cancer
Wang, Shiyuan, Xiong, Yuqiang, Zhang, Qi, Su, Dongqing, Yu, Chunlu, Cao, Yiyin, Pan, Yi, Lu, Qianzi, Zuo, Yongchun, Yang, Lei
Published in Briefings in bioinformatics (01.07.2021)
Published in Briefings in bioinformatics (01.07.2021)
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GraphCDR: a graph neural network method with contrastive learning for cancer drug response prediction
Liu, Xuan, Song, Congzhi, Huang, Feng, Fu, Haitao, Xiao, Wenjie, Zhang, Wen
Published in Briefings in bioinformatics (17.01.2022)
Published in Briefings in bioinformatics (17.01.2022)
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Exploring pharmacological active ingredients of traditional Chinese medicine by pharmacotranscriptomic map in ITCM
Tian, Saisai, Zhang, Jinbo, Yuan, Shunling, Wang, Qun, Lv, Chao, Wang, Jinxing, Fang, Jiansong, Fu, Lu, Yang, Jian, Zu, Xianpeng, Zhao, Jing, Zhang, Weidong
Published in Briefings in bioinformatics (19.03.2023)
Published in Briefings in bioinformatics (19.03.2023)
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A broken promise: microbiome differential abundance methods do not control the false discovery rate
Hawinkel, Stijn, Mattiello, Federico, Bijnens, Luc, Thas, Olivier
Published in Briefings in bioinformatics (18.01.2019)
Published in Briefings in bioinformatics (18.01.2019)
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Comprehensive assessment of cellular senescence in the tumor microenvironment
Wang, Xiaoman, Ma, Lifei, Pei, Xiaoya, Wang, Heping, Tang, Xiaoqiang, Pei, Jian-Fei, Ding, Yang-Nan, Qu, Siyao, Wei, Zi-Yu, Wang, Hui-Yu, Wang, Xiaoyue, Wei, Gong-Hong, Liu, De-Pei, Chen, Hou-Zao
Published in Briefings in bioinformatics (13.05.2022)
Published in Briefings in bioinformatics (13.05.2022)
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AlphaFold2-aware protein–DNA binding site prediction using graph transformer
Yuan, Qianmu, Chen, Sheng, Rao, Jiahua, Zheng, Shuangjia, Zhao, Huiying, Yang, Yuedong
Published in Briefings in bioinformatics (10.03.2022)
Published in Briefings in bioinformatics (10.03.2022)
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AttentionSiteDTI: an interpretable graph-based model for drug-target interaction prediction using NLP sentence-level relation classification
Yazdani-Jahromi, Mehdi, Yousefi, Niloofar, Tayebi, Aida, Kolanthai, Elayaraja, Neal, Craig J, Seal, Sudipta, Garibay, Ozlem Ozmen
Published in Briefings in bioinformatics (18.07.2022)
Published in Briefings in bioinformatics (18.07.2022)
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GPS-Palm: a deep learning-based graphic presentation system for the prediction of S-palmitoylation sites in proteins
Ning, Wanshan, Jiang, Peiran, Guo, Yaping, Wang, Chenwei, Tan, Xiaodan, Zhang, Weizhi, Peng, Di, Xue, Yu
Published in Briefings in bioinformatics (22.03.2021)
Published in Briefings in bioinformatics (22.03.2021)
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A survey of tools for variant analysis of next-generation genome sequencing data
Pabinger, S., Dander, A., Fischer, M., Snajder, R., Sperk, M., Efremova, M., Krabichler, B., Speicher, M. R., Zschocke, J., Trajanoski, Z.
Published in Briefings in bioinformatics (01.03.2014)
Published in Briefings in bioinformatics (01.03.2014)
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