Search Results - previous computational methods

SNRMPACDC: computational model focused on Siamese network and random matrix projection for anticancer synergistic drug combination prediction by Li, Tian-Hao, Wang, Chun-Chun, Zhang, Li, Chen, Xing

“… Considering the limitations of the previous computational methods, we developed a new model named Siamese Network and Random Matrix Projection for AntiCancer Drug Combination prediction (SNRMPACDC…”
Get full text

RNA-Seq gene expression estimation with read mapping uncertainty by Li, Bo, Ruotti, Victor, Stewart, Ron M., Thomson, James A., Dewey, Colin N.

“… Previous computational methods either discard reads that map to multiple locations or allocate them to genes heuristically. Results…”
Get full text

Benchmarking cell-type clustering methods for spatially resolved transcriptomics data by Cheng, Andrew, Hu, Guanyu, Li, Wei Vivian

“… While previous computational methods have relied on gene expression information alone for clustering single-cell populations, more recent methods have begun to leverage spatial location and histology…”
Get full text

PREDICT: a method for inferring novel drug indications with application to personalized medicine by Gottlieb, Assaf, Stein, Gideon Y, Ruppin, Eytan, Sharan, Roded

“… Previous computational methods in this domain have focused on either drug repositioning or matching drug and disease gene expression profiles…”
Get full text

NCMCMDA: miRNA–disease association prediction through neighborhood constraint matrix completion by Chen, Xing, Sun, Lian-Gang, Zhao, Yan

“… In view of that traditional biological experiments cost much time and resources, computational models would serve as complementary means to uncover potential miRNA…”
Get full text

Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake by Kingsford, Carleton L, Ayanbule, Kunmi, Salzberg, Steven L

“… Previous computational methods to predict Rho-independent terminators have been slow or limited in the organisms they consider…”
Get full text

WBSMDA: Within and Between Score for MiRNA-Disease Association prediction by Chen, Xing, Yan, Chenggang Clarence, Zhang, Xu, You, Zhu-Hong, Deng, Lixi, Liu, Ying, Zhang, Yongdong, Dai, Qionghai

“… Considering the limitations in previous computational methods, we developed the model of Within and Between Score for MiRNA-Disease Association prediction (WBSMDA…”
Get full text

Predicting potential microbe-disease associations based on auto-encoder and graph convolution network by Lu, Shanghui, Liang, Yong, Li, Le, Miao, Rui, Liao, Shuilin, Zou, Yongfu, Yang, Chengjun, Ouyang, Dong

“… The computational methods can solve the above problems well, but the previous computational methods still have the problems…”
Get full text

Walking the interactome to identify human miRNA-disease associations through the functional link between miRNA targets and disease genes by Shi, Hongbo, Xu, Juan, Zhang, Guangde, Xu, Liangde, Li, Chunquan, Wang, Li, Zhao, Zheng, Jiang, Wei, Guo, Zheng, Li, Xia

“… However, miRNA-disease associations identified by previous computational methods are far from completeness and more effort is needed…”
Get full text

Accelerating the Hit-To-Lead Optimization of a SARS-CoV-2 Mpro Inhibitor Series by Combining High-Throughput Medicinal Chemistry and Computational Simulations by Hazemann, Julien, Kimmerlin, Thierry, Mac Sweeney, Aengus, Bourquin, Geoffroy, Lange, Roland, Ritz, Daniel, Richard-Bildstein, Sylvia, Regeon, Sylvain, Czodrowski, Paul

“… (identified by computational methods in a previous work) by combining computational simulations with high-throughput medicinal chemistry (HTMC…”
Get more information

Integrating Multiple Heterogeneous Networks for Novel LncRNA-Disease Association Inference by Zhang, Jingpu, Zhang, Zuping, Chen, Zhigang, Deng, Lei

“… Considering the limitations in previous computational methods, we develop a new global network-based…”
Get full text

SDLDA: lncRNA-disease association prediction based on singular value decomposition and deep learning by Zeng, Min, Lu, Chengqian, Zhang, Fuhao, Li, Yiming, Wu, Fang-Xiang, Li, Yaohang, Li, Min

“…•A novel hybrid computational framework for lncRNA-disease association prediction…”
Get full text

Equivariant 3D-Conditional Diffusion Model for De Novo Drug Design by Zheng, Jia, Yi, Hai-Cheng, You, Zhu-Hong

“…De novo drug design speeds up drug discovery, mitigating its time and cost burdens with advanced computational methods…”
Get full text

Prokaryotic virus host predictor: a Gaussian model for host prediction of prokaryotic viruses in metagenomics by Lu, Congyu, Zhang, Zheng, Cai, Zena, Zhu, Zhaozhong, Qiu, Ye, Wu, Aiping, Jiang, Taijiao, Zheng, Heping, Peng, Yousong

“… Currently, the method for determining the viral host is either to culture the virus, which is low-throughput, time-consuming, and expensive, or to computationally predict the viral hosts, which needs…”
Get full text

High-order neural networks and kernel methods for peptide-MHC binding prediction by Kuksa, Pavel P., Min, Martin Renqiang, Dugar, Rishabh, Gerstein, Mark

“… However, previous computational methods fail to capture key nonlinear high-order dependencies between different amino acid positions…”
Get full text

Scaling laws of bacterial and archaeal plasmids by Maddamsetti, Rohan, Shyti, Irida, Wilson, Maggie L., Son, Hye-In, Baig, Yasa, Zhou, Zhengqing, Lu, Jia, You, Lingchong

“… ‘Pseudoalignment and Probabilistic Iterative Read Assignment’ (pseuPIRA), a computational method that overcomes previous computational bottlenecks, enabling rapid and accurate determination of plasmid copy numbers at large scale…”
Get full text

HGIMDA: Heterogeneous graph inference for miRNA-disease association prediction by Chen, Xing, Yan, Chenggang Clarence, Zhang, Xu, You, Zhu-Hong, Huang, Yu-An, Yan, Gui-Ying

“…s. In this study, considering the limitations in the previous computational methods, we developed the computational model of Heterogeneous Graph Inference for MiRNA-Disease Association prediction (HGIMDA…”
Get more information

A heterogeneous label propagation approach to explore the potential associations between miRNA and disease by Chen, Xing, Zhang, De-Hong, You, Zhu-Hong

“… Methods In this study, considering the insufficiency of the previous computational methods, we proposed the model named heterogeneous label propagation for MiRNA-disease association prediction (HLPMDA…”
Get full text

High-accuracy prediction of bacterial type III secreted effectors based on position-specific amino acid composition profiles by Wang, Yejun, Zhang, Qing, Sun, Ming-an, Guo, Dianjing

“…), which play important roles in the interaction between bacteria and their hosts. Previous computational methods for T3S protein prediction have only achieved limited…”
Get full text

Plasma protein binding prediction focusing on residue-level features and circularity of cyclic peptides by deep learning by Li, Jianan, Yanagisawa, Keisuke, Yoshikawa, Yasushi, Ohue, Masahito, Akiyama, Yutaka

“… However, due to structural differences, previous computational prediction methods developed for small-molecule compounds cannot be successfully applied to cyclic peptides, and methods for predicting…”
Get full text