DeepGraphGO: graph neural network for large-scale, multispecies protein function prediction
You, Ronghui, Yao, Shuwei, Mamitsuka, Hiroshi, Zhu, Shanfeng
Published in Bioinformatics (12.07.2021)
Published in Bioinformatics (12.07.2021)
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Journal Article
Similarity-based machine learning methods for predicting drug-target interactions: a brief review
Ding, Hao, Takigawa, Ichigaku, Mamitsuka, Hiroshi, Zhu, Shanfeng
Published in Briefings in bioinformatics (01.09.2014)
Published in Briefings in bioinformatics (01.09.2014)
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Journal Article
GOLabeler: improving sequence-based large-scale protein function prediction by learning to rank
You, Ronghui, Zhang, Zihan, Xiong, Yi, Sun, Fengzhu, Mamitsuka, Hiroshi, Zhu, Shanfeng
Published in Bioinformatics (15.07.2018)
Published in Bioinformatics (15.07.2018)
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Journal Article
HPOLabeler: improving prediction of human protein–phenotype associations by learning to rank
Liu, Lizhi, Huang, Xiaodi, Mamitsuka, Hiroshi, Zhu, Shanfeng
Published in Bioinformatics (15.08.2020)
Published in Bioinformatics (15.08.2020)
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Journal Article
DeepMeSH: deep semantic representation for improving large-scale MeSH indexing
Peng, Shengwen, You, Ronghui, Wang, Hongning, Zhai, Chengxiang, Mamitsuka, Hiroshi, Zhu, Shanfeng
Published in Bioinformatics (15.06.2016)
Published in Bioinformatics (15.06.2016)
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Journal Article
HPODNets: deep graph convolutional networks for predicting human protein–phenotype associations
Liu, Lizhi, Mamitsuka, Hiroshi, Zhu, Shanfeng
Published in Bioinformatics (Oxford, England) (01.02.2022)
Published in Bioinformatics (Oxford, England) (01.02.2022)
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Journal Article
Effective binning of metagenomic contigs using contrastive multi-view representation learning
Wang, Ziye, You, Ronghui, Han, Haitao, Liu, Wei, Sun, Fengzhu, Zhu, Shanfeng
Published in Nature communications (17.01.2024)
Published in Nature communications (17.01.2024)
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Journal Article
PLMSearch: Protein language model powers accurate and fast sequence search for remote homology
Liu, Wei, Wang, Ziye, You, Ronghui, Xie, Chenghan, Wei, Hong, Xiong, Yi, Yang, Jianyi, Zhu, Shanfeng
Published in Nature communications (30.03.2024)
Published in Nature communications (30.03.2024)
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Journal Article
Author Correction: PLMSearch: Protein language model powers accurate and fast sequence search for remote homology
Liu, Wei, Wang, Ziye, You, Ronghui, Xie, Chenghan, Wei, Hong, Xiong, Yi, Yang, Jianyi, Zhu, Shanfeng
Published in Nature communications (05.09.2024)
Published in Nature communications (05.09.2024)
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Journal Article
Toward more accurate pan-specific MHC-peptide binding prediction: a review of current methods and tools
LIANMING ZHANG, UDAKA, Keiko, MAMITSUKA, Hiroshi, SHANFENG ZHU
Published in Briefings in bioinformatics (01.05.2012)
Published in Briefings in bioinformatics (01.05.2012)
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Journal Article
GrantExtractor: Accurate Grant Support Information Extraction from Biomedical Fulltext Based on Bi-LSTM-CRF
Dai, Suyang, Ding, Yuxia, Zhang, Zihan, Zuo, Wenxuan, Huang, Xiaodi, Zhu, Shanfeng
Published in IEEE/ACM transactions on computational biology and bioinformatics (01.01.2021)
Published in IEEE/ACM transactions on computational biology and bioinformatics (01.01.2021)
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Journal Article
TEPITOPEpan: extending TEPITOPE for peptide binding prediction covering over 700 HLA-DR molecules
Zhang, Lianming, Chen, Yiqing, Wong, Hau-San, Zhou, Shuigeng, Mamitsuka, Hiroshi, Zhu, Shanfeng
Published in PloS one (23.02.2012)
Published in PloS one (23.02.2012)
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Journal Article
Does Summarization Help Stock Prediction? A News Impact Analysis
Li, Xiaodong, Xie, Haoran, Song, Yangqiu, Zhu, Shanfeng, Li, Qing, Wang, Fu Lee
Published in IEEE intelligent systems (01.05.2015)
Published in IEEE intelligent systems (01.05.2015)
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ICH-LR2S2: a new risk score for predicting stroke-associated pneumonia from spontaneous intracerebral hemorrhage
Yan, Jing, Zhai, Weiqi, Li, Zhaoxia, Ding, LingLing, You, Jia, Zeng, Jiayi, Yang, Xin, Wang, Chunjuan, Meng, Xia, Jiang, Yong, Huang, Xiaodi, Wang, Shouyan, Wang, Yilong, Li, Zixiao, Zhu, Shanfeng, Wang, Yongjun, Zhao, Xingquan, Feng, Jianfeng
Published in Journal of translational medicine (04.05.2022)
Published in Journal of translational medicine (04.05.2022)
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Journal Article
HPOAnnotator: improving large-scale prediction of HPO annotations by low-rank approximation with HPO semantic similarities and multiple PPI networks
Gao, Junning, Liu, Lizhi, Yao, Shuwei, Huang, Xiaodi, Mamitsuka, Hiroshi, Zhu, Shanfeng
Published in BMC medical genomics (23.12.2019)
Published in BMC medical genomics (23.12.2019)
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