Gene Teams are on the Field: Evaluation of Variants in Gene-Networks Using High Dimensional Modelling (English)
- New search for: Tuna, Suha
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- https://orcid.org/0000-0002-9492-6896
- New search for: Gulec, Cagri
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- https://orcid.org/0000-0002-1256-9574
- New search for: Yucesan, Emrah
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- https://orcid.org/0000-0003-4512-8764
- New search for: Cirakoglu, Ayse
- Further information on Cirakoglu, Ayse:
- https://orcid.org/0000-0003-0330-2277
- New search for: Arguden, Yelda Tarkan
- Further information on Arguden, Yelda Tarkan:
- https://orcid.org/0000-0002-5405-3365
- New search for: Tuna, Suha
- Further information on Tuna, Suha:
- https://orcid.org/0000-0002-9492-6896
- New search for: Gulec, Cagri
- Further information on Gulec, Cagri:
- https://orcid.org/0000-0002-1256-9574
- New search for: Yucesan, Emrah
- Further information on Yucesan, Emrah:
- https://orcid.org/0000-0003-4512-8764
- New search for: Cirakoglu, Ayse
- Further information on Cirakoglu, Ayse:
- https://orcid.org/0000-0003-0330-2277
- New search for: Arguden, Yelda Tarkan
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In:
IEEE/ACM Transactions on Computational Biology and Bioinformatics
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20
, 5
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2959-2969
;
2023
- Article (Journal) / Electronic Resource
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Title:Gene Teams are on the Field: Evaluation of Variants in Gene-Networks Using High Dimensional Modelling
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Contributors:Tuna, Suha ( author ) / Gulec, Cagri ( author ) / Yucesan, Emrah ( author ) / Cirakoglu, Ayse ( author ) / Arguden, Yelda Tarkan ( author )
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Published in:IEEE/ACM Transactions on Computational Biology and Bioinformatics ; 20, 5 ; 2959-2969
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Publisher:
- New search for: IEEE
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Publication date:2023-09-01
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Size:4194560 byte
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ISSN:
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DOI:
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Type of media:Article (Journal)
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Type of material:Electronic Resource
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Language:English
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Source:
Table of contents – Volume 20, Issue 5
The tables of contents are generated automatically and are based on the data records of the individual contributions available in the index of the TIB portal. The display of the Tables of Contents may therefore be incomplete.
- 2610
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Combining K Nearest Neighbor With Nonnegative Matrix Factorization for Predicting Circrna-Disease AssociationsWang, Mei-Neng / Xie, Xue-Jun / You, Zhu-Hong / Wong, Leon / Li, Li-Ping / Chen, Zhan-Heng et al. | 2023
- 2619
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Protein-DNA Binding Residues Prediction Using a Deep Learning Model With Hierarchical Feature ExtractionGuan, Shixuan / Zou, Quan / Wu, Hongjie / Ding, Yijie et al. | 2023
- 2629
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Predicting MiRNA-Disease Associations by Graph Representation Learning Based on Jumping Knowledge NetworksLi, Zheng-Wei / Wang, Qian-Kun / Yuan, Chang-An / Han, Peng-Yong / You, Zhu-Hong / Wang, Lei et al. | 2023
- 2639
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Tuberculosis Diagnosis Using Deep Transferred EfficientNetHuang, Chengxi / Wang, Wei / Zhang, Xin / Wang, Shui-Hua / Zhang, Yu-Dong et al. | 2023
- 2647
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Drug-Target Interaction Prediction via Graph Auto-Encoder and Multi-Subspace Deep Neural NetworksYe, Qing / Zhang, Xiaolong / Lin, Xiaoli et al. | 2023
- 2659
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PARCEL: Physics-Based Unsupervised Contrastive Representation Learning for Multi-Coil MR ImagingWang, Shanshan / Wu, Ruoyou / Li, Cheng / Zou, Juan / Zhang, Ziyao / Liu, Qiegen / Xi, Yan / Zheng, Hairong et al. | 2023
- 2671
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Constructing Integrative ceRNA Networks and Finding Prognostic Biomarkers in Renal Cell CarcinomaLee, Seokwoo / Lee, Wook / Ren, Shulei / Park, Byungkyu / Han, Kyungsook et al. | 2023
- 2681
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MAGCN: A Multiple Attention Graph Convolution Networks for Predicting Synthetic LethalityLu, Xinguo / Chen, Guanyuan / Li, Jinxin / Hu, Xiangjin / Sun, Fengxu et al. | 2023
- 2690
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Using Fully Convolutional Network to Locate Transcription Factor Binding Sites Based on DNA Sequence and Conservation InformationZhang, Qinhu / Xu, Youhong / Wang, Siguo / Wu, Yong / Ye, Yuannong / Yuan, Chang-An / Gribova, Valeriya / Filaretov, Vladimir Fedorovich / Huang, De-Shuang et al. | 2023
- 2700
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Transfer Learning for Classification of Alzheimer's Disease Based on Genome Wide DataAlatrany, Abbas Saad / Khan, Wasiq / Hussain, Abir J. / Mustafina, Jamila / Al-Jumeily, Dhiya et al. | 2023
- 2712
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RNPredATC: A Deep Residual Learning-Based Model With Applications to the Prediction of Drug-ATC Code AssociationZhao, Haochen / Duan, Guihua / Ni, Peng / Yan, Cheng / Li, Yaohang / Wang, Jianxin et al. | 2023
- 2724
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An Integrative Disease Information Network Approach to Similar Disease DetectionXu, Wuli / Duan, Lei / Zheng, Huiru / Li-Ling, Jesse / Jiang, Weipeng / Zhang, Yidan / Wang, Tingting / Qin, Ruiqi et al. | 2023
- 2736
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Assessing Global-Local Secondary Structure Fingerprints to Classify RNA Sequences With Deep LearningSutanto, Kevin / Turcotte, Marcel et al. | 2023
- 2748
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Multi-View Feature Aggregation for Predicting Microbe-Disease AssociationPeng, Wei / Liu, Ming / Dai, Wei / Chen, Tielin / Fu, Yu / Pan, Yi et al. | 2023
- 2759
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Adaptive Stochastic Optimization to Improve Protein Conformation SamplingZaman, Ahmed Bin / Inan, Toki Tahmid / De Jong, Kenneth / Shehu, Amarda et al. | 2023
- 2772
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Prot2GO: Predicting GO Annotations From Protein Sequences and InteractionsZhang, Xiaoshuai / Wang, Lixin / Liu, Hucheng / Zhang, Xiaofeng / Liu, Bo / Wang, Yadong / Li, Junyi et al. | 2023
- 2781
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Predicting Drug-Target Interaction Via Self-Supervised LearningChen, Jiatao / Zhang, Liang / Cheng, Ke / Jin, Bo / Lu, Xinjiang / Che, Chao et al. | 2023
- 2790
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A Construction Method of Dynamic Protein Interaction Networks by Using Relevant Features of Gene Expression DataSun, Jing / Pan, Li / Li, Bin / Wang, Haoyue / Yang, Bo / Li, Wenbin et al. | 2023
- 2802
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A New Binary Biclustering Algorithm Based on Weight Adjacency Difference Matrix for Analyzing Gene Expression DataChu, He-Ming / Kong, Xiang-Zhen / Liu, Jin-Xing / Zheng, Chun-Hou / Zhang, Han et al. | 2023
- 2810
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A Survey of Computational Methods and Databases for lncRNA-MiRNA Interaction PredictionSheng, Nan / Huang, Lan / Gao, Ling / Cao, Yangkun / Xie, Xuping / Wang, Yan et al. | 2023
- 2827
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AADB: A Manually Collected Database for Combinations of Antibiotics With AdjuvantsLv, Ji / Liu, Guixia / Ju, Yuan / Huang, Houhou / Sun, Ying et al. | 2023
- 2837
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Artificial Intelligence Models for Cell Type and Subtype Identification Based on Single-Cell RNA Sequencing Data in Vision ScienceMadadi, Yeganeh / Monavarfeshani, Aboozar / Chen, Hao / Stamer, W. Daniel / Williams, Robert W. / Yousefi, Siamak et al. | 2023
- 2853
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CNNGRN: A Convolutional Neural Network-Based Method for Gene Regulatory Network Inference From Bulk Time-Series Expression DataGao, Zhen / Tang, Jin / Xia, Junfeng / Zheng, Chun-Hou / Wei, Pi-Jing et al. | 2023
- 2862
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Common Attractors in Multiple Boolean NetworksCao, Yu / Pi, Wenya / Lin, Chun-Yu / Munzner, Ulrike / Ohtomo, Masahiro / Akutsu, Tatsuya et al. | 2023
- 2874
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Comparison of Methods for Biological Sequence ClusteringWei, Ze-Gang / Chen, Xu / Zhang, Xiao-Dan / Zhang, Hao / Fan, Xing-Guo / Gao, Hong-Yan / Liu, Fei / Qian, Yu et al. | 2023
- 2889
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Computing Phylo-$k$k-MersRomashchenko, Nikolai / Linard, Benjamin / Rivals, Eric / Pardi, Fabio et al. | 2023
- 2898
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CRBSP:Prediction of CircRNA-RBP Binding Sites Based on Multimodal Intermediate FusionLiu, Niannian / Zhang, Zequn / Wu, Yanan / Wang, Yinglong / Liang, Ying et al. | 2023
- 2907
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DeepSG2PPI: A Protein-Protein Interaction Prediction Method Based on Deep LearningZhang, Fan / Zhang, Yawei / Zhu, Xiaoke / Chen, Xiaopan / Lu, Fuhao / Zhang, Xinhong et al. | 2023
- 2920
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Efficient Inference of Spatially-Varying Gaussian Markov Random Fields With Applications in Gene Regulatory NetworksRavikumar, Visweswaran / Xu, Tong / Al-Holou, Wajd N. / Fattahi, Salar / Rao, Arvind et al. | 2023
- 2933
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Enhancing Biomedical ReQA With Adversarial Hard In-Batch Negative SamplesZhao, Bo / Bai, Jun / Li, Chen / Zhang, Jianfei / Rong, Wenge / Ouyang, Yuanxin / Xiong, Zhang et al. | 2023
- 2945
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GCSTI: A Single-Cell Pseudotemporal Trajectory Inference Method Based on Graph CompressionTu, Wenhui / Ling, Guang / Liu, Feng / Hu, Fuyan / Song, Xiangxiang et al. | 2023
- 2959
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Gene Teams are on the Field: Evaluation of Variants in Gene-Networks Using High Dimensional ModellingTuna, Suha / Gulec, Cagri / Yucesan, Emrah / Cirakoglu, Ayse / Arguden, Yelda Tarkan et al. | 2023
- 2970
-
Helical Three Dimensional Reconstruction Using Bayesian Optimization for Cryogenic Electron MicroscopyOhashi, Masataka / Maeda, Shin-ichi / Sato, Chikara et al. | 2023
- 2981
-
Hierarchical Vaccine Allocation Based on Epidemiological and Behavioral ConsiderationsRoy, Satyaki / Dutta, Pratyay / Ghosh, Preetam et al. | 2023
- 2992
-
High Net Information Density DNA Data Storage by the MOPE Encoding AlgorithmZheng, Yanfen / Cao, Ben / Wu, Jieqiong / Wang, Bin / Zhang, Qiang et al. | 2023
- 3001
-
Improving Inter-Helix Contact Prediction With Local 2D Topological InformationLi, Jiefu / Sawhney, Aman / Lee, Jung-Youn / Liao, Li et al. | 2023
- 3013
-
iSnoDi-MDRF: Identifying snoRNA-Disease Associations Based on Multiple Biological Data by Ranking FrameworkZhang, Wenxiang / Liu, Bin et al. | 2023
- 3020
-
LDSSNV: A Linkage Disequilibrium-Based Method for the Detection of Somatic Single-Nucleotide VariantsLan, Jingfen / Chen, Wenxiang / Yin, Ganggang / Haque, A. K. Alvi / Xie, Kun / Yu, Qiang / Yuan, Xiguo et al. | 2023
- 3033
-
Low Rank Matrix Factorization Algorithm Based on Multi-Graph Regularization for Detecting Drug-Disease AssociationAi, Chengwei / Yang, Hongpeng / Ding, Yijie / Tang, Jijun / Guo, Fei et al. | 2023
- 3044
-
Molecular Joint Representation Learning via Multi-Modal Information of SMILES and GraphsWu, Tianyu / Tang, Yang / Sun, Qiyu / Xiong, Luolin et al. | 2023
- 3056
-
MTGDC: A Multi-Scale Tensor Graph Diffusion Clustering for Single-Cell RNA Sequencing DataLiu, Qiaoming / Wang, Dong / Zhou, Li / Li, Jie / Wang, Guohua et al. | 2023
- 3068
-
Multi-Label Classification With Dual Tail-Node Augmentation for Drug RepositioningZhu, Xinyu / Lu, Weiming et al. | 2023
- 3080
-
NGCICM: A Novel Deep Learning-Based Method for Predicting circRNA-miRNA InteractionsMa, Zhihao / Kuang, Zhufang / Deng, Lei et al. | 2023
- 3093
-
Optimal Supervised Reduction of High Dimensional Transcription DataBailey, Richard / Sarkar, Aisharjya / Singh, Aaditya / Dobra, Alin / Kahveci, Tamer et al. | 2023
- 3106
-
PACVP: Prediction of Anti-Coronavirus Peptides Using a Stacking Learning Strategy With Effective Feature RepresentationChen, Shouzhi / Liao, Yanhong / Zhao, Jianping / Bin, Yannan / Zheng, Chunhou et al. | 2023
- 3117
-
Patient Graph Deep Learning to Predict Breast Cancer Molecular SubtypeFurtney, Isaac / Bradley, Ray / Kabuka, Mansur R. et al. | 2023
- 3128
-
PointDE: Protein Docking Evaluation Using 3D Point Cloud Neural NetworkChen, Zihao / Liu, Nan / Huang, Yang / Min, Xiaoping / Zeng, Xiangxiang / Ge, Shengxiang / Zhang, Jun / Xia, Ningshao et al. | 2023
- 3139
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Porting and Optimizing BWA-MEM2 Using the Fujitsu A64FX ProcessorLangarita, Ruben / Armejach, Adria / Ibanez, Pablo / Alastruey-Benede, Jesus / Moreto, Miquel et al. | 2023
- 3154
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Potential circRNA-Disease Association Prediction Using DeepWalk and Nonnegative Matrix FactorizationQiao, Li-Juan / Gao, Zhen / Ji, Cun-Mei / Liu, Zhi-Hao / Zheng, Chun-Hou / Wang, Yu-Tian et al. | 2023
- 3163
-
Predator: Predicting the Impact of Cancer Somatic Mutations on Protein-Protein InteractionsBerber, Ibrahim / Erten, Cesim / Kazan, Hilal et al. | 2023
- 3173
-
Predicting Disease-Associated N7–Methylguanosine (m7G) Sites via Random Walk on Heterogeneous NetworkHuang, Yiran / Wu, Zhihong / Lan, Wei / Zhong, Cheng et al. | 2023
- 3182
-
Predicting Protein-Protein Interactions Using Sequence and Network Information via Variational Graph AutoencoderLuo, Xin / Wang, Liwei / Hu, Pengwei / Hu, Lun et al. | 2023
- 3195
-
Prediction of Five-Year Survival Rate for Rectal Cancer Using Markov Models of Convolutional Features of RhoB Expression on Tissue MicroarrayPham, Tuan D. et al. | 2023
- 3205
-
Prediction of Multiple Types of RNA Modifications via Biological Language ModelZhang, Ying / Ge, Fang / Li, Fuyi / Yang, Xibei / Song, Jiangning / Yu, Dong-Jun et al. | 2023
- 3215
-
Prediction of Protein-Protein Interactions Using Vision Transformer and Language ModelJha, Kanchan / Saha, Sriparna / Karmakar, Sourav et al. | 2023
- 3226
-
PredinID: Predicting Pathogenic Inframe Indels in Human Through Graph Convolution Neural Network With Graph Sampling TechniqueYue, Zhenyu / Xiang, Ying / Chen, Guojun / Wang, Xiaosong / Li, Ke / Zhang, Youhua et al. | 2023
- 3234
-
Recurrence Network Analysis of Histopathological Images for the Detection of Invasive Ductal Carcinoma in Breast CancerChen, Cheng-Bang / Wang, Yujie / Fu, Xuanya / Yang, Hui et al. | 2023
- 3245
-
Self-Supervised Learning for Label Sparsity in Computational Drug RepositioningYang, Xinxing / Yang, Genke / Chu, Jian et al. | 2023
- 3257
-
SGNet: Sequence-Based Convolution and Ligand Graph Network for Protein Binding Affinity PredictionChen, Peng / Shen, Huimin / Zhang, Youzhi / Wang, Bing / Gu, Pengying et al. | 2023
- 3267
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Slice-Fusion: Reducing False Positives in Liver Tumor Detection for Mask R-CNNTu, Deng-Yao / Lin, Peng-Chan / Chou, Hsin-Hung / Shen, Meng-Ru / Hsieh, Sun-Yuan et al. | 2023
- 3278
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StemP: A Fast and Deterministic Stem-Graph Approach for RNA Secondary Structure PredictionTang, Mengyi / Hwang, Kumbit / Kang, Sung Ha et al. | 2023
- 3292
-
The Intrinsic Similarity of Topological Structure in Biological Neural NetworksZhao, Hongfei / Shao, Cunqi / Shi, Zhiguo / He, Shibo / Gong, Zhefeng et al. | 2023
- 3306
-
Protein Loop Modeling Using AlphaFold2Wang, Junlin / Wang, Wenbo / Shang, Yi et al. | 2023
- 3314
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RefinePocket: An Attention-Enhanced and Mask-Guided Deep Learning Approach for Protein Binding Site PredictionLiu, Yongchang / Li, Peiying / Tu, Shikui / Xu, Lei et al. | 2023
- 3322
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WVDL: Weighted Voting Deep Learning Model for Predicting RNA-Protein Binding SitesPan, Zhengsen / Zhou, Shusen / Liu, Tong / Liu, Chanjuan / Zang, Mujun / Wang, Qingjun et al. | 2023