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Biological knowledge graph-guided investigation of immune therapy response in cancer with graph neural network 期刊论文
BRIEFINGS IN BIOINFORMATICS, 2023, 卷号: 24, 期号: 2, 页码: 9
作者:  Zhao, Lianhe;  Qi, Xiaoning;  Chen, Yang;  Qiao, Yixuan;  Bu, Dechao;  Wu, Yang;  Luo, Yufan;  Wang, Sheng;  Zhang, Rui;  Zhao, Yi
收藏  |  浏览/下载：9/0  |  提交时间：2023/12/04
immune checkpoints inhibitors  deep learning  graph neural networks  
ncFANs v2.0: an integrative platform for functional annotation of non-coding RNAs 期刊论文
NUCLEIC ACIDS RESEARCH, 2021, 卷号: 49, 期号: W1, 页码: W459-W468
作者:  Zhang, Yuwei;  Bu, Dechao;  Huo, Peipei;  Wang, Zhihao;  Rong, Hao;  Li, Yanguo;  Liu, Jingjia;  Ye, Meng;  Wu, Yang;  Jiang, Zheng;  Liao, Qi;  Zhao, Yi
收藏  |  浏览/下载：38/0  |  提交时间：2021/12/01
FangNet: Mining herb hidden knowledge from TCM clinical effective formulas using structure network algorithm 期刊论文
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL, 2021, 卷号: 19, 页码: 62-71
作者:  Bu, Dechao;  Xia, Yan;  Zhang, JiaYuan;  Cao, Wanchen;  Huo, Peipei;  Wang, Zhihao;  He, Zihao;  Ding, Linyi;  Wu, Yang;  Zhang, Shan;  Gao, Kai;  Yu, He;  Liu, Tiegang;  Ding, Xia;  Gu, Xiaohong;  Zhao, Yi
收藏  |  浏览/下载：38/0  |  提交时间：2021/12/01
Formulas  Herb  Symptom  TCM  
DeepOmix: A scalable and interpretable multi-omics deep learning framework and application in cancer survival analysis 期刊论文
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL, 2021, 卷号: 19, 页码: 2719-2725
作者:  Zhao, Lianhe;  Dong, Qiongye;  Luo, Chunlong;  Wu, Yang;  Bu, Dechao;  Qi, Xiaoning;  Luo, Yufan;  Zhao, Yi
收藏  |  浏览/下载：44/0  |  提交时间：2021/12/01
Multi-omics  Deep learning  Survival analysis  Prognosis prediction  Interpretable model  
Identification and function annotation of long intervening noncoding RNAs 期刊论文
BRIEFINGS IN BIOINFORMATICS, 2017, 卷号: 18, 期号: 5, 页码: 789-797
作者:  Luo, Haitao;  Bu, Dechao;  Sun, Liang;  Fang, Shuangsang;  Liu, Zhiyong;  Zhao, Yi
收藏  |  浏览/下载：67/0  |  提交时间：2019/12/12
transcriptom sequencing  noncoding RNAs  gene identification  function annotation  network analysis  computational method  
NPInter v3.0: an upgraded database of noncoding RNA-associated interactions 期刊论文
DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION, 2016, 页码: 9
作者:  Hao, Yajing;  Wu, Wei;  Li, Hui;  Yuan, Jiao;  Luo, Jianjun;  Zhao, Yi;  Chen, Runsheng
收藏  |  浏览/下载：58/0  |  提交时间：2019/12/13
A degree-distribution based hierarchical agglomerative clustering algorithm for protein complexes identification 期刊论文
COMPUTATIONAL BIOLOGY AND CHEMISTRY, 2011, 卷号: 35, 期号: 5, 页码: 298-307
作者:  Yu, Liang;  Gao, Lin;  Li, Kui;  Zhao, Yi;  Chiu, David K. Y.
收藏  |  浏览/下载：70/0  |  提交时间：2019/12/16
Protein-protein interaction (PPI) networks  Complexes  Degree distribution  Hierarchical agglomerative algorithm  
ncFANs: a web server for functional annotation of long non-coding RNAs 期刊论文
NUCLEIC ACIDS RESEARCH, 2011, 卷号: 39, 页码: W118-W124
作者:  Liao, Qi;  Xiao, Hui;  Bu, Dechao;  Xie, Chaoyong;  Miao, Ruoyu;  Luo, Haitao;  Zhao, Guoguang;  Yu, Kuntao;  Zhao, Haitao;  Skogerbo, Geir;  Chen, Runsheng;  Wu, Zhongdao;  Liu, Changning;  Zhao, Yi
收藏  |  浏览/下载：88/0  |  提交时间：2019/12/16
Large-scale prediction of long non-coding RNA functions in a coding-non-coding gene co-expression network 期刊论文
NUCLEIC ACIDS RESEARCH, 2011, 卷号: 39, 期号: 9, 页码: 3864-3878
作者:  Liao, Qi;  Liu, Changning;  Yuan, Xiongying;  Kang, Shuli;  Miao, Ruoyu;  Xiao, Hui;  Zhao, Guoguang;  Luo, Haitao;  Bu, Dechao;  Zhao, Haitao;  Skogerbo, Geir;  Wu, Zhongdao;  Zhao, Yi
收藏  |  浏览/下载：406/0  |  提交时间：2019/12/16
LEX-SVM: EXPLORING THE POTENTIAL OF EXON EXPRESSION PROFILING FOR DISEASE CLASSIFICATION 期刊论文
JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2011, 卷号: 9, 期号: 2, 页码: 299-316
作者:  Yuan, Xiongying;  Zhao, Yi;  Liu, Changning;  Bu, Dongbo
收藏  |  浏览/下载：72/0  |  提交时间：2019/12/16
Alternative splicing  Affymetrix exon array  RNA-Seq  exon expression profile classification  regularized SVM