| 1 | -- | 14 | Qiaoming Liu, Xudong Zhao 0002, Guohua Wang. A Clustering Ensemble Method for Cell Type Detection by Multiobjective Particle Optimization |
| 15 | -- | 29 | Kun Liu, Hong-Dong Li, Yaohang Li, Jun Wang, Jianxin Wang 0001. A Comparison of Topologically Associating Domain Callers Based on Hi-C Data |
| 30 | -- | 38 | Jan Klosa, Noah Simon, Volkmar Liebscher, Dörte Wittenburg. A Fitted Sparse-Group Lasso for Genome-Based Evaluations |
| 39 | -- | 51 | Chengzhuan Yang, Lincong Fang, Qian Yu, Hui Wei 0001. A Learning Robust and Discriminative Shape Descriptor for Plant Species Identification |
| 52 | -- | 60 | Feng Zhou, Meng-Meng Yin, Jing-Xiu Zhao, Junliang Shang, Jin-Xing Liu. A Method Based On Dual-Network Information Fusion to Predict MiRNA-Disease Associations |
| 61 | -- | 73 | Qiang Yu 0003, Xiao Zhang, Yana Hu, Shengpin Chen, Liying Yang 0001. A Method for Predicting DNA Motif Length Based On Deep Learning |
| 74 | -- | 93 | Weixian Huang, Kaiwen Tan, Ziye Zhang, Jinlong Hu, Shoubin Dong. A Review of Fusion Methods for Omics and Imaging Data |
| 94 | -- | 105 | Ashish Ranjan 0003, Archana Tiwari, Akshay Deepak. A Sub-Sequence Based Approach to Protein Function Prediction via Multi-Attention Based Multi-Aspect Network |
| 106 | -- | 118 | Jun Bai, Chuantao Yin, Jianfei Zhang, Yanmeng Wang, Yi Dong, Wenge Rong, Zhang Xiong 0001. Adversarial Knowledge Distillation Based Biomedical Factoid Question Answering |
| 119 | -- | 135 | Katrin Sophie Bohnsack, Marika Kaden, Julia Abel, Thomas Villmann. Alignment-Free Sequence Comparison: A Systematic Survey From a Machine Learning Perspective |
| 136 | -- | 150 | Steffy Maria Joseph, P. S. Sathidevi 0001. An Automated cDNA Microarray Image Analysis for the Determination of Gene Expression Ratios |
| 151 | -- | 161 | Sahar Iravani, Tim O. F. Conrad. An Interpretable Deep Learning Approach for Biomarker Detection in LC-MS Proteomics Data |
| 162 | -- | 173 | Kanchan Jha, Sriparna Saha 0001. Analyzing Effect of Multi-Modality in Predicting Protein-Protein Interactions |
| 174 | -- | 184 | Shankarachary Ragi, Md Hafizur Rahman, Jamison Duckworth, Kalimuthu Jawaharraj, Parvathi Chundi, Venkataramana Gadhamshetty. Artificial Intelligence-Driven Image Analysis of Bacterial Cells and Biofilms |
| 185 | -- | 195 | Hao Zhang 0079, Chuanxu Yan, Yewei Xia, Jihong Guan, Shuigeng Zhou. Causal Gene Identification Using Non-Linear Regression-Based Independence Tests |
| 196 | -- | 205 | 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 |
| 206 | -- | 216 | Tuan D. Pham. Classification of Caenorhabditis Elegans Locomotion Behaviors With Eigenfeature-Enhanced Long Short-Term Memory Networks |
| 217 | -- | 237 | Ichcha Manipur, Maurizio Giordano, Marina Piccirillo, Seetharaman Parashuraman, Lucia Maddalena 0001. Community Detection in Protein-Protein Interaction Networks and Applications |
| 238 | -- | 255 | Rizwan Qureshi, Bin Zou 0004, Tanvir Alam, Jia Wu 0009, Victor H. F. Lee, Hong Yan 0001. Computational Methods for the Analysis and Prediction of EGFR-Mutated Lung Cancer Drug Resistance: Recent Advances in Drug Design, Challenges and Future Prospects |
| 256 | -- | 265 | Jingbo Yang, Denan Zhang, Yiyang Cai, Kexin Yu, Mingming Li, Lei Liu, Xiujie Chen. Computational Prediction of Drug Phenotypic Effects Based on Substructure-Phenotype Associations |
| 266 | -- | 276 | Wook Lee, Seokwoo Lee, Kyungsook Han. Constructing a Cancer Patient-Specific Network Based on Second-Order Partial Correlations of Gene Expression and DNA Methylation |
| 277 | -- | 284 | Zhi-hao Liu, Cunmei Ji, Jian-Cheng Ni, Yu-Tian Wang, Li-Juan Qiao, Chun-Hou Zheng 0001. Convolution Neural Networks Using Deep Matrix Factorization for Predicting Circrna-Disease Association |
| 285 | -- | 296 | Yang Hua, Xiaoning Song, Zhen-Hua Feng, Xiaojun Wu 0001, Josef Kittler, Dong-jun Yu. CPInformer for Efficient and Robust Compound-Protein Interaction Prediction |
| 297 | -- | 306 | Kailong Li, Lijun Quan, Yelu Jiang, Yan Li, Yiting Zhou, Tingfang Wu, Qiang Lyu. 2ISP: Protein-Protein Interaction Sites Prediction Using Convolution and Transformer With Data Augmentation |
| 307 | -- | 320 | Xiuquan Du, Jiajia Hu. Deep Multi-Label Joint Learning for RNA and DNA-Binding Proteins Prediction |
| 321 | -- | 329 | Xiaohui Yang, Zi-Jun Xi, Jie-Ping Li, Xin-Lei Feng, Xiao-Hong Zhu, Si-Yi Guo, Chun-Peng Song. Deep Transfer Learning-Based Multi-Object Detection for Plant Stomata Phenotypic Traits Intelligent Recognition |
| 330 | -- | 339 | Onur Can Uner, Halil Ibrahim Kuru, Ramazan Gokberk Cinbis, Oznur Tastan, A. Ercüment Çiçek. DeepSide: A Deep Learning Approach for Drug Side Effect Prediction |
| 340 | -- | 351 | Zimo Huang, Jun Wang, Zhongmin Yan, Lin Wan, Maozu Guo 0001. Differential Gene Expression Prediction by Ensemble Deep Networks on Histone Modification Data |
| 352 | -- | 359 | Jinghang Lin, Xiaoran Tong, Chenxi Li, Qing Lu. Expectile Neural Networks for Genetic Data Analysis of Complex Diseases |
| 360 | -- | 370 | Lucia Williams, Alexandru I. Tomescu, Brendan Mumey. Flow Decomposition With Subpath Constraints |
| 371 | -- | 377 | Huadong Wang, Jianhui Sun, Mengya Liu, Chun-Hou Zheng 0001, Junfeng Xia, Na Cheng. frDSM: An Ensemble Predictor With Effective Feature Representation for Deleterious Synonymous Mutation in Human Genome |
| 378 | -- | 387 | Cheng-Hong Yang 0001, Hsiu-Chen Huang, Ming-Feng Hou, Li-Yeh Chuang, Yu-Da Lin. Fuzzy-Based Multiobjective Multifactor Dimensionality Reduction for Epistasis Analysis |
| 388 | -- | 398 | Jianwei Li, Duanyang Wang, Zhenwu Yang, Ming Liu. HEGANLDA: A Computational Model for Predicting Potential Lncrna-Disease Associations Based On Multiple Heterogeneous Networks |
| 399 | -- | 409 | Qie Liu, Junhao Li, Mingyu Dong, Min Liu, Yi Chai. Identification of Gene Regulatory Networks Using Variational Bayesian Inference in the Presence of Missing Data |
| 410 | -- | 420 | Ashwin Lahorkar, Hrushikesh Bhosale, Aamod Sane, Vigneshwar Ramakrishnan, Valadi K. Jayaraman. Identification of Phase Separating Proteins With Distributed Reduced Alphabet Representations of Sequences |
| 421 | -- | 431 | Jiazhou Chen, Guoqiang Han, Aodan Xu, Tatsuya Akutsu, Hongmin Cai. Identifying miRNA-Gene Common and Specific Regulatory Modules for Cancer Subtyping by a High-Order Graph Matching Model |
| 432 | -- | 441 | Ning Wang, Jun Zhang, Bin Liu 0014. iDRBP-EL: Identifying DNA- and RNA- Binding Proteins Based on Hierarchical Ensemble Learning |
| 442 | -- | 454 | Antonio R. Paiva, Giovanni Pilloni. Inferring Microbial Biomass Yield and Cell Weight Using Probabilistic Macrochemical Modeling |
| 455 | -- | 464 | Huanhuan Wang, Xiang Wu. IPP: An Intelligent Privacy-Preserving Scheme for Detecting Interactions in Genome Association Studies |
| 465 | -- | 475 | Yingyi Liu, Hong-Dong Li, Yunpei Xu, Yi-Wei Liu, Xiaoqing Peng, Jianxin Wang 0001. IsoCell: An Approach to Enhance Single Cell Clustering by Integrating Isoform-Level Expression Through Orthogonal Projection |
| 476 | -- | 488 | Zhaowu Lu, Jun Wang 0024, Rui Mao 0001, Minhua Lu, Jun Shi 0004. Jointly Composite Feature Learning and Autism Spectrum Disorder Classification Using Deep Multi-Output Takagi-Sugeno-Kang Fuzzy Inference Systems |
| 489 | -- | 499 | Yi Sun, Jian Wang 0021, Hongfei Lin, Yijia Zhang 0001, Zhihao Yang. Knowledge Guided Attention and Graph Convolutional Networks for Chemical-Disease Relation Extraction |
| 500 | -- | 511 | Yijie Ding, Wenying He, Jijun Tang, Quan Zou 0001, Fei Guo 0001. Laplacian Regularized Sparse Representation Based Classifier for Identifying DNA N4-Methylcytosine Sites via $L_{2,1/2}$L2,1/2-Matrix Norm |
| 512 | -- | 523 | Xingze Wang, Guoxian Yu, Zhongmin Yan, Lin Wan, Wei Wang 0012, LiZhen Cui. Lung Cancer Subtype Diagnosis by Fusing Image-Genomics Data and Hybrid Deep Networks |
| 524 | -- | 533 | Mengmeng Kuang, Yong Zhang 0001, Tak Wah Lam, Hing-Fung Ting. MLProbs: A Data-Centric Pipeline for Better Multiple Sequence Alignment |
| 534 | -- | 543 | Jin-Xing Liu, Meng-Meng Yin, Ying-Lian Gao, Junliang Shang, Chun-Hou Zheng 0001. MSF-LRR: Multi-Similarity Information Fusion Through Low-Rank Representation to Predict Disease-Associated Microbes |
| 544 | -- | 556 | Xiaofeng Shi, Cheng Liang, Hong Wang. Multiview Robust Graph-Based Clustering for Cancer Subtype Identification |
| 557 | -- | 565 | Diego de S. Lima, Luiz J. A. Amichi, Maria A. Fernandez, Ademir A. Constantino, Flávio A. V. Seixas. NCYPred: A Bidirectional LSTM Network With Attention for Y RNA and Short Non-Coding RNA Classification |
| 566 | -- | 575 | Wenming Wu, Xiaoke Ma. Network-Based Structural Learning Nonnegative Matrix Factorization Algorithm for Clustering of scRNA-Seq Data |
| 576 | -- | 585 | Chunjiang Yu, Xin Qi, Wenying Yan, Wentao Wu 0004, Bairong Shen. Next-Generation Sequencing Markup Language (NGSML): A Medium for the Representation and Exchange of NGS Data |
| 586 | -- | 594 | Ali Akbar Jamali, Anthony J. Kusalik, Fang-Xiang Wu. NMTF-DTI: A Nonnegative Matrix Tri-factorization Approach With Multiple Kernel Fusion for Drug-Target Interaction Prediction |
| 595 | -- | 605 | Zhaoying Chai, Han Jin, Shenghui Shi, Siyan Zhan, Lin Zhuo, Yu Yang, Qi Lian. Noise Reduction Learning Based on XLNet-CRF for Biomedical Named Entity Recognition |
| 606 | -- | 615 | Tzu-Hsuan Wu, Peng-Chan Lin, Hsin-Hung Chou, Meng-Ru Shen, Sun-Yuan Hsieh. Pathogenicity Prediction of Single Amino Acid Variants With Machine Learning Model Based on Protein Structural Energies |
| 616 | -- | 624 | Ying He, Qinhu Zhang, Siguo Wang, Zhanheng Chen, Zhen Cui, Zhen-Hao Guo, De-Shuang Huang. Predicting the Sequence Specificities of DNA-Binding Proteins by DNA Fine-Tuned Language Model With Decaying Learning Rates |
| 625 | -- | 636 | Mukunthan Tharmakulasingam, Brian Gardner, Roberto La Ragione, Anil Fernando. Rectified Classifier Chains for Prediction of Antibiotic Resistance From Multi-Labelled Data With Missing Labels |
| 637 | -- | 645 | Ye Li, Fanhui Kong, Hui Cui 0002, Fan Wang, Chunquan Li 0002, Jiquan Ma. SENIES: DNA Shape Enhanced Two-Layer Deep Learning Predictor for the Identification of Enhancers and Their Strength |
| 646 | -- | 657 | Dhananjay Kimothi, Pravesh Biyani, James M. Hogan, Melissa J. Davis. Sequence Representations and Their Utility for Predicting Protein-Protein Interactions |
| 658 | -- | 667 | Jiazhou Chen, Wentao Rong, Guihua Tao, Hongmin Cai. Similarity Fusion via Exploiting High Order Proximity for Cancer Subtyping |
| 668 | -- | 682 | Vishal Rana, Eli Chien, Jianhao Peng, Olgica Milenkovic. Small-Sample Estimation of the Mutational Support and Distribution of SARS-CoV-2 |
| 683 | -- | 693 | Romica Kerketta, M. Frank Erasmus, Bridget S. Wilson, Ádám M. Halász, Jeremy S. Edwards. Spatial Stochastic Model of the Pre-B Cell Receptor |
| 694 | -- | 706 | Hongxiao Wang, Hao Zheng 0006, Danny Z. Chen. TANGO: A GO-Term Embedding Based Method for Protein Semantic Similarity Prediction |
| 707 | -- | 719 | Cui Su, Jun Pang 0001. Target Control of Asynchronous Boolean Networks |
| 720 | -- | 730 | Evgenia Chunikhina, Paul Logan, Yevgeniy Kovchegov, Anatoly Yambartsev, Debashis Mondal, Andrey Morgun. The C-SHIFT Algorithm for Normalizing Covariances |
| 731 | -- | 741 | Xinxing Yang, GenKe Yang, Jian Chu. The Neural Metric Factorization for Computational Drug Repositioning |
| 742 | -- | 751 | Nikhila T. Suresh, Vimina E. R. 0001, Krishnakumar U.. Topology Driven Analysis of Protein - Protein Interactome for Prioritizing Key Comorbid Genes via Sub Graph Based Average Path Length Centrality |
| 752 | -- | 762 | Manisha Saini, Seba Susan. VGGIN-Net: Deep Transfer Network for Imbalanced Breast Cancer Dataset |
| 763 | -- | 774 | Qiaoliang Liu, Fu Liu, Yan Miao, Jiaxue He, Tian Dong, Tao Hou, Yun Liu 0003. Virsearcher: Identifying Bacteriophages from Metagenomes by Combining Convolutional Neural Network and Gene Information |
| 775 | -- | 784 | Hajin Jeon, Jeongmin Bae, Hyerin Kim, Min-Soo Kim 0002. VPrimer: A Method of Designing and Updating Primer and Probe With High Variant Coverage for RNA Virus Detection |
| 785 | -- | 795 | Yixiong Liang, Zhihua Yin, Haotian Liu, Hailong Zeng, Jianxin Wang 0001, Jianfeng Liu, Nanying Che. Weakly Supervised Deep Nuclei Segmentation With Sparsely Annotated Bounding Boxes for DNA Image Cytometry |
| 796 | -- | 801 | Turki M. Sobahy, Olaa A. Motwalli, Meshari Alazmi. AllelePred: A Simple Allele Frequencies Ensemble Predictor for Different Single Nucleotide Variants |
| 802 | -- | 807 | Hemanth Kari, Surya Manikhanta Sowri Bandi, Aditya Kumar, Venkata Rajesh Yella. DeePromClass: Delineator for Eukaryotic Core Promoters Employing Deep Neural Networks |