- Alejandro Valdés-Jiménez, Miguel Reyes-Parada, Gabriel Núñez-Vivanco, Daniel Jiménez-González:
Parallel Algorithm for Discovering and Comparing Three-Dimensional Proteins Patterns. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 508-515 (2024) - Wenjing Wang, Pengyong Han, Zhengwei Li, Ru Nie, Kangwei Wang, Lei Wang, Hongmei Liao:
LMGATCDA: Graph Neural Network With Labeling Trick for Predicting circRNA-Disease Associations. IEEE ACM Trans. Comput. Biol. Bioinform. 21(2): 289-300 (2024) - Wei Wang, Zhenxi Sun, Dong Liu, Hongjun Zhang, Juntao Li, Xian-Fang Wang, Yun Zhou:
MAHyNet: Parallel Hybrid Network for RNA-Protein Binding Sites Prediction Based on Multi-Head Attention and Expectation Pooling. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 416-427 (2024) - Juan Wang, Zhen-Chang Wang, Shasha Yuan, Chun-Hou Zheng, Jin-Xing Liu, Junliang Shang:
A Clustering Method for Single-Cell RNA-Seq Data Based on Automatic Weighting Penalty and Low-Rank Representation. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 360-371 (2024) - Wei Wang, MengXue Yu, Bin Sun, Juntao Li, Dong Liu, Hongjun Zhang, Xianfang Wang, Yun Zhou:
SMGCN: Multiple Similarity and Multiple Kernel Fusion Based Graph Convolutional Neural Network for Drug-Target Interactions Prediction. IEEE ACM Trans. Comput. Biol. Bioinform. 21(1): 143-154 (2024) - Junchang Xin, Mingcan Wang, Luxuan Qu, Qi Chen, Weiyiqi Wang, Zhiqiong Wang:
BIC-LP: A Hybrid Higher-Order Dynamic Bayesian Network Score Function for Gene Regulatory Network Reconstruction. IEEE ACM Trans. Comput. Biol. Bioinform. 21(1): 188-199 (2024) - Cheng Yan, Guihua Duan:
PMDAGS: Predicting miRNA-Disease Associations With Graph Nonlinear Diffusion Convolution Network and Similarities. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 394-404 (2024) - Xiaohui Yang, Ye-Tong Wang, Ming-Hui Wu, Fan Li, Cheng-Long Zhou, Li-Jun Yang, Chen Zheng, Yong Li, Zhi Li, Si-Yi Guo, Chun-Peng Song:
SLPA-Net: A Real-Time Recognition Network for Intelligent Stomata Localization and Phenotypic Analysis. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 372-382 (2024) - Sunyong Yoo, Myeonghyeon Jeong, Subhin Seomun, Kiseong Kim, Youngmahn Han:
Interpretable Prediction of SARS-CoV-2 Epitope-Specific TCR Recognition Using a Pre-Trained Protein Language Model. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 428-438 (2024) - Shengpeng Yu, Hong Wang, Jing Li, Jun Zhao, Cheng Liang, Yanshen Sun:
A Multi-Relational Graph Encoder Network for Fine-Grained Prediction of MiRNA-Disease Associations. IEEE ACM Trans. Comput. Biol. Bioinform. 21(1): 45-56 (2024) - Changyong Yu, Yuhai Zhao, Chu Zhao, Jianyu Jin, Keming Mao, Guoren Wang:
MiniDBG: A Novel and Minimal De Bruijn Graph for Read Mapping. IEEE ACM Trans. Comput. Biol. Bioinform. 21(1): 129-142 (2024) - João Paulo Pereira Zanetti, Lucas Peres Oliveira, João Meidanis, Leonid Chindelevitch:
Counting Sorting Scenarios and Intermediate Genomes for the Rank Distance. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 316-327 (2024) - Pengcheng Zeng, Zhixiang Lin:
scICML: Information-Theoretic Co-Clustering-Based Multi-View Learning for the Integrative Analysis of Single-Cell Multi-Omics Data. IEEE ACM Trans. Comput. Biol. Bioinform. 21(1): 200-207 (2024) - Hao Zhang, Jiao Jiao, Tianheng Zhao, Enshuang Zhao, Lanhui Li, Guihua Li, Borui Zhang, Qing-Ming Qin:
GERWR: Identifying the Key Pathogenicity- Associated sRNAs of Magnaporthe Oryzae Infection in Rice Based on Graph Embedding and Random Walk With Restart. IEEE ACM Trans. Comput. Biol. Bioinform. 21(2): 227-239 (2024) - Shan Zhang, Yuan Zhou, Pei Geng, Qing Lu:
Functional Neural Networks for High-Dimensional Genetic Data Analysis. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 383-393 (2024) - 2023
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Best Match Graphs With Binary Trees. IEEE ACM Trans. Comput. Biol. Bioinform. 20(3): 1679-1690 (2023) - Hui Yu, KangKang Li, Jianyu Shi:
DGANDDI: Double Generative Adversarial Networks for Drug-Drug Interaction Prediction. IEEE ACM Trans. Comput. Biol. Bioinform. 20(3): 1854-1863 (2023) - Wei Wang, Bin Sun, MengXue Yu, ShiYu Wu, Dong Liu, Hongjun Zhang, Yun Zhou:
GraphPLBR: Protein-Ligand Binding Residue Prediction With Deep Graph Convolution Network. IEEE ACM Trans. Comput. Biol. Bioinform. 20(3): 2223-2232 (2023) - Amir Hossein Abolmasoumi, Mohammad Mohammadian, Lamine Mili:
Robust KALMAN Filter State Estimation for Gene Regulatory Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 20(2): 1395-1405 (2023) - Mainak Adhikari, Abhishek Hazra, Sudarshan Nandy:
Deep Transfer Learning for Communicable Disease Detection and Recommendation in Edge Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 20(4): 2468-2479 (2023) - Imran Ahmed, Abdellah Chehri, Gwanggil Jeon, Francesco Piccialli:
Automated Pulmonary Nodule Classification and Detection Using Deep Learning Architectures. IEEE ACM Trans. Comput. Biol. Bioinform. 20(4): 2445-2456 (2023) - Chengwei Ai, Hongpeng Yang, Yijie Ding, Jijun Tang, Fei Guo:
Low Rank Matrix Factorization Algorithm Based on Multi-Graph Regularization for Detecting Drug-Disease Association. IEEE ACM Trans. Comput. Biol. Bioinform. 20(5): 3033-3043 (2023) - Raeed Al-Sabri, Jianliang Gao, Jiamin Chen, Babatounde Moctard Oloulade, Tengfei Lyu:
Multi-View Graph Neural Architecture Search for Biomedical Entity and Relation Extraction. IEEE ACM Trans. Comput. Biol. Bioinform. 20(2): 1221-1233 (2023) - Abbas Saad Alatrany, Wasiq Khan, Abir Jaafar Hussain, Jamila Mustafina, Dhiya Al-Jumeily:
Transfer Learning for Classification of Alzheimer's Disease Based on Genome Wide Data. IEEE ACM Trans. Comput. Biol. Bioinform. 20(5): 2700-2711 (2023) - Alexsandro Oliveira Alexandrino, Klairton Lima Brito, Andre Rodrigues Oliveira, Ulisses Dias, Zanoni Dias:
Reversal and Indel Distance With Intergenic Region Information. IEEE ACM Trans. Comput. Biol. Bioinform. 20(3): 1628-1640 (2023) - Sarwan Ali, Bikram Sahoo, Muhammad Asad Khan, Alexander Zelikovsky, Imdadullah Khan, Murray Patterson:
Efficient Approximate Kernel Based Spike Sequence Classification. IEEE ACM Trans. Comput. Biol. Bioinform. 20(6): 3376-3388 (2023) - Elizabeth S. Allman, Hector Baños, John A. Rhodes:
Testing Multispecies Coalescent Simulators Using Summary Statistics. IEEE ACM Trans. Comput. Biol. Bioinform. 20(2): 1613-1618 (2023) - Volkan Altuntas:
Diffusion Alignment Coefficient (DAC): A Novel Similarity Metric for Protein-Protein Interaction Network. IEEE ACM Trans. Comput. Biol. Bioinform. 20(2): 894-903 (2023) - Naser Anjum, Raian Latif Nabil, Rakibul Islam Rafi, Md. Shamsuzzoha Bayzid, Mohammad Saifur Rahman:
CD-MAWS: An Alignment-Free Phylogeny Estimation Method Using Cosine Distance on Minimal Absent Word Sets. IEEE ACM Trans. Comput. Biol. Bioinform. 20(1): 196-205 (2023) - Muhammad Arsalan, Tariq Mahmood Khan, Syed Saud Naqvi, Mehmood Nawaz, Imran Razzak:
Prompt Deep Light-Weight Vessel Segmentation Network (PLVS-Net). IEEE ACM Trans. Comput. Biol. Bioinform. 20(2): 1363-1371 (2023)