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Publication search results
found 260 matches
- 2024
- Kanchan Jha, Sriparna Saha, Pratik Dutta:
Incorporation of gene ontology in identification of protein interactions from biomedical corpus: a multi-modal approach. Ann. Oper. Res. 339(3): 1793-1811 (2024) - Jin Zhang, Zikang Ma, Yan Yang, Lei Guo, Lei Du:
Modeling genotype-protein interaction and correlation for Alzheimer's disease: a multi-omics imaging genetics study. Briefings Bioinform. 25(2) (2024) - Xin Zeng, Fan-Fang Meng, Xin Li, Kai-Yang Zhong, Bei Jiang, Yi Li:
GHGPR-PPIS: A graph convolutional network for identifying protein-protein interaction site using heat kernel with Generalized PageRank techniques and edge self-attention feature processing block. Comput. Biol. Medicine 168: 107683 (2024) - Duanhua Cao, Geng Chen, Jiaxin Jiang, Jie Yu, Runze Zhang, Mingan Chen, Wei Zhang, Lifan Chen, Feisheng Zhong, Yingying Zhang, Chenghao Lu, Xutong Li, Xiaomin Luo, Sulin Zhang, Mingyue Zheng:
Generic protein-ligand interaction scoring by integrating physical prior knowledge and data augmentation modelling. Nat. Mac. Intell. 6(6): 688-700 (2024) - Lirong Wu, Yufei Huang, Cheng Tan, Zhangyang Gao, Bozhen Hu, Haitao Lin, Zicheng Liu, Stan Z. Li:
PSC-CPI: Multi-Scale Protein Sequence-Structure Contrasting for Efficient and Generalizable Compound-Protein Interaction Prediction. AAAI 2024: 310-319 - Qianxi Lin, Zipeng Fan, Yanfei Li, Peng Zhang:
HyperCPI: A Novel Method Based on Hypergraph for Compound Protein Interaction Prediction with Good Generalization Ability. ICIC (LNBI 2) 2024: 189-200 - Anton Bushuiev, Roman Bushuiev, Petr Kouba, Anatolii Filkin, Marketa Gabrielova, Michal Gabriel, Jirí Sedlár, Tomás Pluskal, Jirí Damborský, Stanislav Mazurenko, Josef Sivic:
Learning to design protein-protein interactions with enhanced generalization. ICLR 2024 - Zhilin Huang, Ling Yang, Xiangxin Zhou, Chujun Qin, Yijie Yu, Xiawu Zheng, Zikun Zhou, Wentao Zhang, Yu Wang, Wenming Yang:
Interaction-based Retrieval-augmented Diffusion Models for Protein-specific 3D Molecule Generation. ICML 2024 - Lirong Wu, Yufei Huang, Cheng Tan, Zhangyang Gao, Bozhen Hu, Haitao Lin, Zicheng Liu, Stan Z. Li:
PSC-CPI: Multi-Scale Protein Sequence-Structure Contrasting for Efficient and Generalizable Compound-Protein Interaction Prediction. CoRR abs/2402.08198 (2024) - Joongwon Lee, Wonho Zhung, Woo Youn Kim:
NCIDiff: Non-covalent Interaction-generative Diffusion Model for Improving Reliability of 3D Molecule Generation Inside Protein Pocket. CoRR abs/2405.16861 (2024) - 2023
- Ying-Ying Zhang, De-Min Liang, Pu-Feng Du:
iEssLnc: quantitative estimation of lncRNA gene essentialities with meta-path-guided random walks on the lncRNA-protein interaction network. Briefings Bioinform. 24(3) (2023) - Xuehua Bi, Weiyang Liang, Qichang Zhao, Jianxin Wang:
SSLpheno: a self-supervised learning approach for gene-phenotype association prediction using protein-protein interactions and gene ontology data. Bioinform. 39(11) (2023) - Yuliang Pan, Yang Wang, Jihong Guan, Shuigeng Zhou:
PCGAN: a generative approach for protein complex identification from protein interaction networks. Bioinform. 39(8) (2023) - Alexandra-Ioana Albu, Maria-Iuliana Bocicor, Gabriela Czibula:
MM-StackEns: A new deep multimodal stacked generalization approach for protein-protein interaction prediction. Comput. Biol. Medicine 153: 106526 (2023) - Erik Faessler, Udo Hahn, Sascha Schäuble:
GePI: large-scale text mining, customized retrieval and flexible filtering of gene/protein interactions. Nucleic Acids Res. 51(W1): 237-242 (2023) - Jérôme Tubiana, Lucia Adriana-Lifshits, Michael Nissan, Matan Gabay, Inbal Sher, Marina Sova, Haim J. Wolfson, Maayan Gal:
Funneling modulatory peptide design with generative models: Discovery and characterization of disruptors of calcineurin protein-protein interactions. PLoS Comput. Biol. 19(2) (2023) - Yifei Wang, Xue Wang, Cheng Chen, Hongli Gao, Adil Salhi, Xin Gao, Bin Yu:
RPI-CapsuleGAN: Predicting RNA-protein interactions through an interpretable generative adversarial capsule network. Pattern Recognit. 141: 109626 (2023) - K. Padmaja, Debarka Mukhopadhyay:
An Investigation of Complex Interactions Between Genetically Determined Protein Expression and the Metabolic Phenotype of Human Islet Cells Using Deep Learning. SN Comput. Sci. 4(6): 767 (2023) - Jing Sun, Li Pan, Bin Li, Haoyue Wang, Bo Yang, Wenbin Li:
A Construction Method of Dynamic Protein Interaction Networks by Using Relevant Features of Gene Expression Data. IEEE ACM Trans. Comput. Biol. Bioinform. 20(5): 2790-2801 (2023) - Ziyuan Zhao, Peisheng Qian, Xulei Yang, Zeng Zeng, Cuntai Guan, Tam Wai Leong, Xiaoli Li:
SemiGNN-PPI: Self-Ensembling Multi-Graph Neural Network for Efficient and Generalizable Protein-Protein Interaction Prediction. IJCAI 2023: 4984-4992 - Ziyuan Zhao, Peisheng Qian, Xulei Yang, Zeng Zeng, Cuntai Guan, Tam Wai Leong, Xiaoli Li:
SemiGNN-PPI: Self-Ensembling Multi-Graph Neural Network for Efficient and Generalizable Protein-Protein Interaction Prediction. CoRR abs/2305.08316 (2023) - Anton Bushuiev, Roman Bushuiev, Anatolii Filkin, Petr Kouba, Marketa Gabrielova, Michal Gabriel, Jirí Sedlár, Tomás Pluskal, Jirí Damborský, Stanislav Mazurenko, Josef Sivic:
Learning to design protein-protein interactions with enhanced generalization. CoRR abs/2310.18515 (2023) - 2022
- Haoxiang Qin, Qidong Shen, Hongyi Zhao, Guozhen Qi, Lei Gao:
Network-based analysis revealed significant interactions between risk genes of severe COVID-19 and host genes interacted with SARS-CoV-2 proteins. Briefings Bioinform. 23(1) (2022) - Ioan Ieremie, Rob M. Ewing, Mahesan Niranjan:
TransformerGO: predicting protein-protein interactions by modelling the attention between sets of gene ontology terms. Bioinform. 38(8): 2269-2277 (2022) - Joseph Szymborski, Amin Emad:
RAPPPID: towards generalizable protein interaction prediction with AWD-LSTM twin networks. Bioinform. 38(16): 3958-3967 (2022) - Olivér M. Balogh, Bettina Benczik, András Horváth, Mátyás Pétervári, Péter Csermely, Péter Ferdinandy, Bence Ágg:
Efficient link prediction in the protein-protein interaction network using topological information in a generative adversarial network machine learning model. BMC Bioinform. 23(1): 78 (2022) - Zehua Guo, Liangjie Liu, Mofan Feng, Kai Su, Runqiu Chi, Keyi Li, Qing Lu, Xianbin Su, Lin-Tai Da, Song Cao, Mingxuan Zhang, Luming Meng, Dan Cao, Jiayi Wang, Guang He, Yi Shi:
3D genome assisted protein-protein interaction prediction. Future Gener. Comput. Syst. 137: 87-96 (2022) - Jingli Wu, Qi Zhang, Gaoshi Li:
Identification of cancer-related module in protein-protein interaction network based on gene prioritization. J. Bioinform. Comput. Biol. 20(1): 2150031:1-2150031:20 (2022) - Jian Wang, Nikolay V. Dokholyan:
Yuel: Improving the Generalizability of Structure-Free Compound-Protein Interaction Prediction. J. Chem. Inf. Model. 62(3): 463-471 (2022) - Jie Zhang, Hongming Chen:
De Novo Molecule Design Using Molecular Generative Models Constrained by Ligand-Protein Interactions. J. Chem. Inf. Model. 62(14): 3291-3306 (2022)
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