Parametrizing using ML

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Manually curated articles on Parametrizing using ML

Abstract Title Authors Publication Date Journal/ Conference Citation count Highest h-index View recommendations
visibility_off Deep learning prediction of patient response time course from early data via neural-pharmacokinetic/pharmacodynamic modelling James Lu, B. Bender, Jin Y. Jin, Y. Guan 2020-10-22 Nature Machine Intelligence 35 38 open_in_new
visibility_off CellBox: Interpretable Machine Learning for Perturbation Biology with Application to the Design of Cancer Combination Therapy. Bo Yuan, Ciyue Shen, Augustin Luna, Anil Korkut, D. Marks, John Ingraham, C. Sander 2020-12-21 Cell systems 71 153 open_in_new
visibility_off Efficient Amortised Bayesian Inference for Hierarchical and Nonlinear Dynamical Systems Geoffrey Roeder, Paul K. Grant, Andrew Phillips, Neil Dalchau, Edward Meeds 2019-05-24 International Conference on Machine Learning, ArXiv 21 28 open_in_new
Abstract Title Authors Publication Date Journal/ Conference Citation count Highest h-index View recommendations

Abstract Title Authors Publication Date Journal/Conference Citation count Highest h-index
visibility_off MGLEP: Multimodal Graph Learning for Modeling Emerging Pandemics with Big Data Khanh-Tung Tran, T. Hy, Lili Jiang, Xuan-Son Vu 2023-10-23 Scientific Reports 0 7
visibility_off Bridging pharmacology and neural networks: A deep dive into neural ordinary differential equations. Idris Bachali Losada, N. Terranova 2024-07-11 CPT: pharmacometrics & systems pharmacology 0 12
visibility_off AI-driven multi-omics integration for multi-scale predictive modeling of causal genotype-environment-phenotype relationships You Wu, Lei Xie Ph.D. Program in Computer Science, The Graduate Center, The City College of New York, New York., Usa, Ph.D. Program in Biology, Biochemistry, Department of Computer Science, Hunter College, Helen, Robert Appel Alzheimers Disease Research Institute, Feil Family Brain, Mind Research Institute, Weill Cornell Medicine, Cornell University 2024-07-08 ArXiv 0 63
visibility_off Relational Reasoning On Graphs Using Opinion Dynamics Yulong Yang, Bowen Feng, Keqin Wang, Naomi Leonard, Adji B. Dieng, Christine Allen-Blanchette 2024-06-20 ArXiv 0 13
visibility_off Probabilistic Temporal Prediction of Continuous Disease Trajectories and Treatment Effects Using Neural SDEs J. Durso-Finley, Berardino Barile, J. Falet, Douglas L. Arnold, Nick Pawlowski, T. Arbel 2024-06-18 ArXiv 0 35
visibility_off Gene Regulatory Network Inference from Pre-trained Single-Cell Transcriptomics Transformer with Joint Graph Learning Sindhura Kommu, Yi‐Zheng Wang, Yue Wang, Xuan Wang 2024-07-25 ArXiv 0 1
visibility_off Amortized Equation Discovery in Hybrid Dynamical Systems Yongtuo Liu, Sara Magliacane, Miltiadis Kofinas, E. Gavves 2024-06-06 ArXiv 0 36
visibility_off Stochastic Neural Simulator for Generalizing Dynamical Systems across Environments Liu Jiaqi, Jiaxu Cui, Jiayi Yang, Bo Yang 2024-08-01 Proceedings of the Thirty-ThirdInternational Joint Conference on Artificial Intelligence 0 0
visibility_off Learning interpretable dynamics of stochastic complex systems from experimental data Tingting Gao, B. Barzel, Gang Yan 2024-07-17 Nature Communications 0 18
visibility_off Learning Networked Dynamical System Models with Weak Form and Graph Neural Networks Yin Yu, Daning Huang, Seho Park, H. Pangborn 2024-07-23 ArXiv 0 11
visibility_off Benchmark on Drug Target Interaction Modeling from a Structure Perspective Xinnan Zhang, Jialin Wu, Junyi Xie, Tianlong Chen, Kaixiong Zhou 2024-07-04 ArXiv 0 1
visibility_off Adapting Physics-Informed Neural Networks To Optimize ODEs in Mosquito Population Dynamics D. V. Cuong, Branislava Lali'c, Mina Petri'c, Binh Nguyen, M. Roantree 2024-06-07 ArXiv 0 17
visibility_off Data-Driven Discovery of Feedback Mechanisms in Acute Myeloid Leukaemia: Alternatives to classical models using Deep Nonlinear Mixed Effect modeling and Symbolic Regression Carl Julius Martensen, Niklas Korsbo, V. Ivaturi, Sebastian Sager 2024-06-19 bioRxiv 0 17
visibility_off Transfer learning of condition-specific perturbation in gene interactions improves drug response prediction D. Bang, Bonil Koo, Sun Kim 2024-06-28 Bioinformatics 0 3
visibility_off Generating Multi-Modal and Multi-Attribute Single-Cell Counts with CFGen Alessandro Palma, Till Richter, Hanyi Zhang, Manuel Lubetzki, Alexander Tong, Andrea Dittadi, Fabian J Theis 2024-07-16 ArXiv 0 1
visibility_off Inference of gene regulatory networks for overcoming low performance in real-world data Yusuke Hiki, Y. Tokuoka, Takahiro G. Yamada, Akira Funahashi 2024-07-22 bioRxiv 0 8
visibility_off Cell-Graph Compass: Modeling Single Cells with Graph Structure Foundation Model Chen Fang, Zhilong Hu, Shaole Chang, Qingqing Long, Wentao Cui, Wenhao Liu, Cong Li, Yana Liu, Pengfei Wang, Zhen Meng, Jia Pan, Yuanchun Zhou, Guihai Feng, Linghui Chen, Xin Li 2024-06-06 bioRxiv 0 3
visibility_off Inferring dynamical models from time-series biological data using an interpretable machine learning method based on weighted expression trees Yu Zhou, Xiufen Zou 2024-07-09 Inverse Problems 0 0
visibility_off Learning dynamical systems from data: An introduction to physics-guided deep learning Rose Yu, Rui Wang 2024-06-24 Proceedings of the National Academy of Sciences of the United States of America 1 1
visibility_off Modeling Randomly Observed Spatiotemporal Dynamical Systems V. Iakovlev, Harri Lähdesmäki 2024-06-01 ArXiv 0 2
visibility_off Machine Learning for ALSFRS-R Score Prediction: Making Sense of the Sensor Data Ritesh Mehta, Aleksandar Pramov, Shashank Verma 2024-07-10 ArXiv 0 0
visibility_off Perspectives on computational modeling of biological systems and the significance of the SysMod community B. L. Puniya, Meghna Verma, Chiara Damiani, Shaimaa Bakr, Andreas Dräger 2024-06-26 Bioinformatics Advances 0 11
visibility_off Understanding the Sources of Performance in Deep Learning Drug Response Prediction Models Nikhil Branson, Pedro R. Cutillas, Conrad Besseant 2024-06-06 bioRxiv 0 1
visibility_off Learning Molecular Representation in a Cell Gang Liu, Srijit Seal, John Arevalo, Zhenwen Liang, A. Carpenter, Meng Jiang, Shantanu Singh 2024-06-17 ArXiv 0 7
visibility_off Multi-cell-line learning for the data-driven construction of mechanistic metabolic models. Yen-An Lu, Meghan G. McCann, Wei-Shou Hu, Qi Zhang 2024-06-03 Biotechnology and bioengineering 0 3
visibility_off DrugSK: A Stacked Ensemble Learning Framework for Predicting Drug Combinations of Multiple Diseases. Siqi Chen, Nana Gao, Chunzhi Li, Fei Zhai, Xiwei Jiang, Peng Zhang, Jibin Guan, Kefeng Li, Rongwu Xiang, Guixia Ling 2024-06-20 Journal of chemical information and modeling 0 5
visibility_off Adaptive Cancer Therapy in the Age of Generative Artificial Intelligence Y. Derbal 2024-01-01 Cancer Control : Journal of the Moffitt Cancer Center 0 6
visibility_off Physiology-informed regularization enables training of universal differential equation systems for biological applications Max de Rooij, Balázs Erdős, N. V. van Riel, Shauna D. O’Donovan 2024-06-01 bioRxiv 0 5
visibility_off MTrans: M-Transformer and Knowledge Graph-Based Network for Predicting Drug–Drug Interactions Shiqi Wu, Baisong Liu, Xueyuan Zhang, Xiaowen Shao, Chennan Lin 2024-07-25 Electronics 0 0
visibility_off Learning metabolic dynamics from irregular observations by Bidirectional Time-Series State Transfer Network. Shaohua Xu, Ting Xu, Yuping Yang, Xin Chen 2024-07-26 mSystems 0 0
visibility_off Variational and Explanatory Neural Networks for Encoding Cancer Profiles and Predicting Drug Responses Tianshu Feng, Rohan D Gnanaolivu, Abolfazl Safikhani, Yuanhang Liu, Jun Jiang, Nicholas Chia, A. Partin, Priyanka Vasanthakumari, Yitan Zhu, Chen Wang 2024-07-05 ArXiv 0 14
visibility_off Graph Neural Ordinary Differential Equations for Coarse-Grained Socioeconomic Dynamics James Koch, Pranab Roy Chowdhury, Heng Wan, Parin Bhaduri, Jim Yoon, Vivek Srikrishnan, W. B. Daniel 2024-07-25 ArXiv 0 13
visibility_off CellFM: a large-scale foundation model pre-trained on transcriptomics of 100 million human cells Yuansong Zeng, Jiancong Xie, Zhuoyi Wei, Yun Su, Ningyuan Shangguan, Shuangyu Yang, Chengyang Zhang, Wenbing Li, Jinbo Zhang, Nan Fang, Hongyu Zhang, Huiying Zhao, Yutong Lu, Jue Fan, Weijiang Yu, Yuedong Yang 2024-06-06 bioRxiv 0 5
visibility_off Opportunities in deep learning methods development for computational biology Alex J. Lee, Reza Abbasi-Asl 2024-06-12 ArXiv 0 1
visibility_off Modeling, Inference, and Prediction in Mobility-Based Compartmental Models for Epidemiology Ning Jiang, Weiqi Chu, Yao Li 2024-06-17 ArXiv 1 0
visibility_off Early Predictor for the Onset of Critical Transitions in Networked Dynamical Systems Zijia Liu, Xiaozhu Zhang, Xiaolei Ru, Tingting Gao, Jack Murdoch Moore, Gang Yan 2024-07-15 Physical Review X 0 9
visibility_off Deep learning-based approach for COVID-19 spread prediction S. Cumbane, Gyözö Gidófalvi 2024-06-10 International Journal of Data Science and Analytics 0 21
visibility_off Inferring metabolite states from spatial transcriptomes using multiple graph neural network Jiaxu Luo, Daosheng Ai, Wenzhi Sun 2024-06-16 bioRxiv 0 0
visibility_off FORWARD: A Learning Framework for Logical Network Perturbations to Prioritize Targets for Drug Development Saptarshi Sinha, Ella McLaren, Madhubanti Mullick, Siddharth Singh, B. Boland, Pradipta Ghosh 2024-07-21 bioRxiv 0 34
visibility_off A variational deep-learning approach to modeling memory T cell dynamics C. V. van Dorp, Joshua I. Gray, Daniel H. Paik, Donna L. Farber, Andrew J. Yates 2024-07-11 bioRxiv 0 10
visibility_off Permutation invariant multi-output Gaussian Processes for drug combination prediction in cancer Leiv Rønneberg, V. Lalchand, Paul D. W. Kirk 2024-06-28 ArXiv 0 6
visibility_off Increasing certainty in systems biology models using Bayesian multimodel inference Nathaniel Linden-Santangeli, Jin Zhang, Boris Kramer, P. Rangamani 2024-06-17 bioRxiv 0 4
visibility_off On the generalization discrepancy of spatiotemporal dynamics-informed graph convolutional networks Yue Sun, Chao Chen, Yuesheng Xu, Sihong Xie, Rick S. Blum, Parv Venkitasubramaniam 2024-07-12 Frontiers in Mechanical Engineering 0 1
visibility_off Abstract PO-005: Mechanistic models of cancer heterogeneity explain and predict clinical outcomes of Large B-Cell Lymphoma (LBCL) treatment Amy E. Pomeroy, Adam C Palmer 2024-06-19 Blood Cancer Discovery 0 3
visibility_off Predicting Survival in Patients with Advanced NSCLC Treated with Atezolizumab Using Pre- and on-Treatment Prognostic Biomarkers. Sébastien Benzekry, M. Karlsen, Célestin Bigarré, Abdessamad El Kaoutari, Bruno Gomes, Martin Stern, Ales Neubert, René Bruno, François Mercier, Suresh Vatakuti, P. Curle, C. Jamois 2024-07-12 Clinical pharmacology and therapeutics 0 12
visibility_off Predicting single-cell cellular responses to perturbations using cycle consistency learning Wei Huang, Hui Liu 2024-06-28 Bioinformatics 0 0
visibility_off Inferring the time-varying coupling of dynamical systems with temporal convolutional autoencoders Josuan Calderon, Gordon J. Berman 2024-06-05 ArXiv 0 1
visibility_off A Message Passing Framework for Precise Cell State Identification with scClassify2 Wenze Ding, Yue Cao, Xiaohang Fu, Marni Torkel, Jean Y H Yang 2024-07-01 bioRxiv 0 6
visibility_off Tree-based variational inference for Poisson log-normal models Alexandre Chaussard, Anna Bonnet, Elisabeth Gassiat, S. Corff 2024-06-25 ArXiv 0 9
visibility_off Multi-Task ADME/PK prediction at industrial scale: leveraging large and diverse experimentaldatasets. Moritz Walter, J. M. Borghardt, Lina Humbeck, Miha Škalič 2024-07-08 Molecular informatics 0 11
visibility_off Combinatorial Complex Score-based Diffusion Modelling through Stochastic Differential Equations Adrien Carrel 2024-06-07 ArXiv 0 0
visibility_off Prediction of Human Liver Microsome Clearance with Chirality-Focused Graph Neural Networks. Chengtao Pu, Lingxi Gu, Yuxuan Hu, Weijie Han, Xiaohe Xu, Haichun Liu, Yadong Chen, Yanmin Zhang 2024-07-08 Journal of chemical information and modeling 0 18
visibility_off Data-driven learning of structure augments quantitative prediction of biological responses Yuanchi Ha, Helena R. Ma, Feilun Wu, Andrea Weiss, Katherine Duncker, Helen Xu, Jia Lu, Max Golovsky, Daniel Reker, Lingchong You 2024-06-01 PLOS Computational Biology 0 8
visibility_off Assessing the Role of Patient Generation Techniques in Virtual Clinical Trial Outcomes J. L. Gevertz, J. R. Wares 2024-06-12 None 0 0
visibility_off Reinventing gene expression connectivity through regulatory and spatial structural empowerment via principal node aggregation graph neural network Fengyao Yan, Limin Jiang, Danqian Chen, M. Ceccarelli, Yan Guo 2024-06-17 Nucleic Acids Research 0 5
visibility_off Low-dimensional representations of genome-scale metabolism Samuel Cain, C. Merzbacher, D. Oyarzún 2024-06-03 bioRxiv 0 19
visibility_off Beyond benchmarking and towards predictive models of dataset-specific single-cell RNA-seq pipeline performance Cindy Fang, Alina Selega, Kieran R. Campbell 2024-06-17 Genome Biology 0 1
visibility_off Drug safety assessment by machine learning models. Nan Miles Xi, D. Huang 2024-06-18 Journal of biopharmaceutical statistics 0 4
visibility_off A comprehensive review of computational cell cycle models in guiding cancer treatment strategies Chenhui Ma, Evren Gurkan-Cavusoglu 2024-07-05 NPJ Systems Biology and Applications 0 3
visibility_off LogicGep: Boolean networks inference using symbolic regression from time-series transcriptomic profiling data Dezhen Zhang, Shuhua Gao, Zhiping Liu, Rui Gao 2024-05-23 Briefings in Bioinformatics 0 4
visibility_off Beyond Conventional Parametric Modeling: Data-Driven Framework for Estimation and Prediction of Time Activity Curves in Dynamic PET Imaging N. Zakariaei, Arman Rahmim, Eldad Haber 2024-05-31 ArXiv 0 3
visibility_off DeepFusionCDR: Employing Multi-Omics Integration and Molecule-Specific Transformers for Enhanced Prediction of Cancer Drug Responses. Xiaowen Hu, Pan Zhang, Jiaxuan Zhang, Lei Deng 2024-06-27 IEEE journal of biomedical and health informatics 0 1
visibility_off A versatile attention-based neural network for chemical perturbation analysis and its potential to aid surgical treatment: A experimental study. Zheqi Fan, Houming Zhao, Jingcheng Zhou, Dingchang Li, Yunlong Fan, Yiming Bi, Shuaifei Ji 2024-06-13 International journal of surgery 0 1
visibility_off Graph Structure Learning with Interpretable Bayesian Neural Networks Max Wasserman, Gonzalo Mateos 2024-06-20 ArXiv 0 3
visibility_off SLInterpreter: An Exploratory and Iterative Human-AI Collaborative System for GNN-based Synthetic Lethal Prediction Haoran Jiang, Shaohan Shi, Shuhao Zhang, Jie Zheng, Quan Li 2024-07-20 ArXiv 0 1
visibility_off Deep learning linking mechanistic models to single-cell transcriptomics data reveals transcriptional bursting in response to DNA damage Zhiwei Huang, Songhao Luo, Zihao Wang, Zhenquan Zhang, Benyuan Jiang, Qing Nie, Jiajun Zhang 2024-07-12 bioRxiv 0 4
visibility_off QSARtuna: An Automated QSAR Modeling Platform for Molecular Property Prediction in Drug Design. Lewis Mervin, Alexey Voronov, Mikhail Kabeshov, O. Engkvist 2024-07-01 Journal of chemical information and modeling 0 4
visibility_off GNNTAL:A Novel Model for Identifying Critical Nodes in Complex Networks Hao Wang, Ting Luo, Shuang-ping Yang, Ming Jing, Jian Wang, Na Zhao 2024-06-24 ArXiv 0 3
visibility_off Multicell-Fold: geometric learning in folding multicellular life Haiqian Yang, Anh Q. Nguyen, Dapeng Bi, Markus J. Buehler, Ming Guo 2024-07-09 ArXiv 0 6
visibility_off Contrastive Learning Drug Response Models from Natural Language Supervision Kun Li, Xiuwen Gong, Jia Wu, Wenbin Hu 2024-08-01 Proceedings of the Thirty-ThirdInternational Joint Conference on Artificial Intelligence 0 1
visibility_off Symplectic Neural Gaussian Processes for Meta-learning Hamiltonian Dynamics Tomoharu Iwata, Yusuke Tanaka 2024-08-01 Proceedings of the Thirty-ThirdInternational Joint Conference on Artificial Intelligence 0 7
visibility_off PhyGICS – A Physics-informed Graph Neural Network-based Intelligent HVAC Controller for Open-plan Spaces S. Nagarathinam, Arunchandar Vasan 2024-05-31 Proceedings of the 15th ACM International Conference on Future and Sustainable Energy Systems 0 15
visibility_off Agent-Based Modeling of Virtual Tumors Reveals the Critical Influence of Microenvironmental Complexity on Immunotherapy Efficacy Yixuan Wang, Daniel R. Bergman, Erica Trujillo, Anthony A. Fernald, Lie Li, Alexander T. Pearson, Randy F. Sweis, Trachette Jackson 2024-07-05 bioRxiv 0 5
visibility_off EpiLearn: A Python Library for Machine Learning in Epidemic Modeling Zewen Liu, Yunxiao Li, Mingyang Wei, Guancheng Wan, Max S. Y. Lau, Wei Jin 2024-06-10 ArXiv 0 1
visibility_off KG-LIME: predicting individualized risk of adverse drug events for multiple sclerosis disease-modifying therapy. Jason Patterson, Nicholas Tatonetti 2024-07-04 Journal of the American Medical Informatics Association : JAMIA 0 0
visibility_off Big data and deep learning for RNA biology Hyeonseo Hwang, Hyeonseong Jeon, Nagyeong Yeo, Daehyun Baek 2024-06-01 Experimental & Molecular Medicine 1 6
visibility_off Space-Time Continuous PDE Forecasting using Equivariant Neural Fields David M. Knigge, David R. Wessels, Riccardo Valperga, Samuele Papa, J. Sonke, E. Gavves, E. J. Bekkers 2024-06-10 ArXiv 1 56
visibility_off Identifying latent state transition in non-linear dynamical systems cCauglar Hizli, cCaugatay Yildiz, Matthias Bethge, ST John, Pekka Marttinen 2024-06-05 ArXiv 0 2
visibility_off Physics-constrained learning for PDE systems with uncertainty quantified port-Hamiltonian models Kaiyuan Tan, Peilun Li, Thomas Beckers 2024-06-17 DBLP, ArXiv 0 1
visibility_off Perspectives on benchmarking foundation models for network biology Christina V. Theodoris 2024-07-11 Quantitative Biology 1 0
visibility_off Gradient matching accelerates mixed-effects inference for biochemical networks Yulan B van Oppen, Andreas Milias-Argeitis 2024-06-12 bioRxiv 0 15
visibility_off COKE: Causal Discovery with Chronological Order and Expert Knowledge in High Proportion of Missing Manufacturing Data Ting-Yun Ou, Ching Chang, Wen-Chih Peng 2024-07-17 ArXiv 0 2
visibility_off Coupling quantitative systems pharmacology modelling to machine learning and artificial intelligence for drug development: its pAIns and gAIns Núria Folguera-Blasco, Florencia A. T. Boshier, Aydar Uatay, C. Pichardo-Almarza, Massimo Lai, Jacopo Biasetti, Richard Dearden, Megan Gibbs, Holly Kimko 2024-07-12 Frontiers in Systems Biology 0 13
visibility_off predicTTE: An accessible and optimal tool for time-to-event prediction in neurological diseases Marcel Weinreich, Harry McDonough, Nancy Yacovzada, I. Magen, Yahel Cohen, C. Harvey, Sarah Gornall, Sarah Boddy, J. Alix, Nima Mohseni, Julian M Kurz, K. Kenna, Sai Zhang, A. Iacoangeli, Ahmad Al-Khleifat, M. Snyder, Esther Hobson, A. Al-Chalabi, E. Hornstein, E. Elhaik, Pamela J. Shaw, C. Mcdermott, J. Cooper-Knock 2024-07-23 bioRxiv 0 44
visibility_off Graph Neural Reaction Diffusion Models Moshe Eliasof, Eldad Haber, Eran Treister 2024-06-16 ArXiv 1 15
visibility_off MIST: an interpretable and flexible deep learning framework for single-T cell transcriptome and receptor analysis Wenpu Lai, Yangqiu Li, Oscar Junhong Luo 2024-07-13 bioRxiv 0 7
visibility_off CODI: Enhancing machine learning-based molecular profiling through contextual out-of-distribution integration Tarek Eissa, Marinus Huber, Barbara Obermayer-Pietsch, Birgit Linkohr, A. Peters, Frank Fleischmann, M. Žigman 2024-06-17 bioRxiv 0 10
visibility_off A Data-Driven Pandemic Simulator with Reinforcement Learning Yuting Zhang, Biyang Ma, Langcai Cao, Yanyu Liu 2024-06-27 Electronics 0 4
visibility_off Improvement of the ANN-Based Prediction Technology for Extremely Small Biomedical Data Analysis I. Izonin, R.O. Tkachenko, O. Berezsky, Iurii Krak, Michal Kováč, M. Fedorchuk 2024-07-12 Technologies 0 23
visibility_off Uncovering hidden and complex relations of pandemic dynamics using an AI driven system Umit Demirbaga, Navneet Kaur, G. Aujla 2024-07-04 Scientific Reports 0 36
visibility_off Benchmarking Deep Jansen-Rit Parameter Inference: An in Silico Study Deepa Tilwani, Christian O'Reilly 2024-06-07 ArXiv 0 2
visibility_off Structure‐aware deep learning model for peptide toxicity prediction Hossein Ebrahimikondori, Darcy Sutherland, Anat Yanai, Amelia Richter, Ali Salehi, Chenkai Li, Lauren Coombe, Monica Kotkoff, René L Warren, I. Birol 2024-06-22 Protein Science : A Publication of the Protein Society 0 64
visibility_off node2vec2rank: Large Scale and Stable Graph Differential Analysis via Multi-Layer Node Embeddings and Ranking Panagiotis Mandros, Ian Gallagher, Viola Fanfani, Chen Chen, Jonas Fischer, Anis Ismail, Lauren Hsu, Enakshi Saha, Derrick K. DeConti, John Quackenbush 2024-06-17 bioRxiv 0 8
visibility_off Advancing cancer drug development with mechanistic mathematical modeling: bridging the gap between theory and practice. Alexander Kulesza, C. Couty, Paul Lemarre, Craig J Thalhauser, Yanguang Cao 2024-06-21 Journal of pharmacokinetics and pharmacodynamics 0 1
visibility_off Stochastic Modeling of Biophysical Responses to Perturbation T. Chari, Gennady Gorin, L. Pachter 2024-07-05 bioRxiv 0 75
visibility_off Ranking protein-protein models with large language models and graph neural networks Xiaotong Xu, A. Bonvin 2024-07-23 ArXiv 0 63
visibility_off Empirical Networks are Sparse: Enhancing Multi-Edge Models with Zero-Inflation Giona Casiraghi, George Andres 2024-06-13 ArXiv 0 9
visibility_off Prediction of post-covid-19 using supervised machine learning techniques Sunday Akinwamide, Rashidat Idris-Tajudeen, Titilope Helen Akin-Olayemi 2024-07-30 World Journal of Advanced Engineering Technology and Sciences 0 0
visibility_off GV-Rep: A Large-Scale Dataset for Genetic Variant Representation Learning Zehui Li, Vallijah Subasri, Guy-Bart Stan, Yiren Zhao, Bo Wang 2024-07-24 ArXiv 0 3
visibility_off Physics-informed nonlinear vector autoregressive models for the prediction of dynamical systems James H. Adler, Samuel Hocking, Xiaozhe Hu, Shafiqul Islam 2024-07-25 ArXiv 0 2
visibility_off Leveraging bounded datapoints to classify molecular potency improvements Zachary Fralish, Paul Skaluba, Daniel Reker 2024-05-31 RSC Medicinal Chemistry 1 2
visibility_off Early prediction of ovarian cancer risk based on real world data Víctor de la Oliva, Alberto Esteban-Medina, Laura Alejos, D. Muñoyerro-Muñiz, R. Villegas, Joaquín Dopazo, C. Loucera 2024-07-27 None 0 12
visibility_off Lung Adenocarcinoma Systems Biomarker and Drug Candidates Identified by Machine Learning, Gene Expression Data, and Integrative Bioinformatics Pipeline. Semra Melis Soyer, Pemra Ozbek, Ceyda Kasavi 2024-07-09 Omics : a journal of integrative biology 0 8
visibility_off Genomic Language Models: Opportunities and Challenges Gonzalo Benegas, Chengzhong Ye, C. Albors, Jianan Canal Li, Yun S. Song 2024-07-16 ArXiv 0 3
visibility_off SurvReLU: Inherently Interpretable Survival Analysis via Deep ReLU Networks Xiaotong Sun, Peijie Qiu, Shengfan Zhang 2024-07-19 ArXiv 0 0
visibility_off Designing Machine Learning Tools to Characterize Multistationarity of Fully Open Reaction Networks Shenghao Yao, AmirHosein Sadeghimanesh, Matthew England 2024-07-01 ArXiv 0 4
visibility_off Deep learning methods for protein function prediction. Frimpong Boadu, Ahhyun Lee, Jianlin Cheng 2024-07-12 Proteomics 0 5
visibility_off Advances in Modeling Approaches for Oral Drug Delivery: Artificial Intelligence, Physiologically-Based Pharmacokinetics, and First-Principles Models Y. Arav 2024-07-24 Pharmaceutics 0 5
visibility_off Waddington landscape for prototype learning in generalized Hopfield networks Nacer Eddine Boukacem, Allen Leary, Robin Thériault, Felix Gottlieb, Madhav Mani, Paul François 2024-07-23 Physical Review Research 0 1
visibility_off Addressing Data Heterogeneity in Federated Learning of Cox Proportional Hazards Models Navid Seidi, Satyaki Roy, Sajal K. Das, Ardhendu Tripathy 2024-07-20 ArXiv 0 1
visibility_off Assessment of Uncertainty Quantification in Universal Differential Equations Nina Schmid, David Fernandes del Pozo, Willem Waegeman, Jan Hasenauer 2024-06-13 ArXiv 0 0
visibility_off Pi-fusion: Physics-informed diffusion model for learning fluid dynamics Jing Qiu, Jiancheng Huang, Xiangdong Zhang, Zeng Lin, Minglei Pan, Zengding Liu, F. Miao 2024-06-06 ArXiv 1 20
visibility_off Data hazards in synthetic biology Natalie R Zelenka, Nina Di Cara, Kieren Sharma, Seeralan Sarvaharman, Jasdeep S. Ghataora, Fabio Parmeggiani, Jeff Nivala, Z. Abdallah, Lucia Marucci, T. Gorochowski 2024-06-21 Synthetic Biology 0 27
visibility_off Hybrid metapopulation agent-based epidemiological models for efficient insight on the individual scale: a contribution to green computing Julia Bicker, Ren´e Schmieding, Martin J. Kuhn 2024-06-06 ArXiv 0 1
visibility_off GeneBag: training a cell foundation model for broad-spectrum cancer diagnosis and prognosis with bulk RNA-seq data Yu-ping Liang, Dan Li, Aguix Guohua Xu, Yan Shao, Kun Tang 2024-07-02 bioRxiv 0 1
visibility_off Prediction of therapeutic response and cancer outcomes in solid tumours via in silico clinical trials. Uzma Asghar, M. Griffiths, Amanzhol Kubeyev, Jordan Laurie, Andrea Giorni, Luiz A Zillmann da Silva, Prabu Sivasubramaniam, Matthew Foster, Andrew Biankin 2024-06-01 Journal of Clinical Oncology 0 1
visibility_off Machine learning and deep learning approaches for enhanced prediction of hERG blockade: a comprehensive QSAR modeling study. Jie Liu, Md Kamrul Hasan Khan, Wenjing Guo, Fan Dong, W. Ge, Chaoyang Zhang, Ping Gong, T. Patterson, Huixiao Hong 2024-07-05 Expert opinion on drug metabolism & toxicology 0 31
visibility_off Deep learning framework with multi-perspective social behaviors for vaccine hesitation Raed Alharbi, Sylvia Chan-Olmsted, Huan Chen, My T. Thai 2024-07-21 Social Network Analysis and Mining 0 3
visibility_off Biomarker development from functional precision medicine datasets via explainable machine learning. Noah Berlow, Arlet M Acanda De La Rocha, Maggie Fader, E. Coats, Cima Saghira, P. Espinal, Jeanette Galano, Z. Khatib, Haneen Y. Abdella, O. Maher, Cristina M. Andrade-Feraud, Baylee Holcomb, Yasmin Ghurani, Lilliam Rimblas, Tom á s R. Guilarte, Nan Hu, Daria Salyakina, Diana J Azzam 2024-06-01 Journal of Clinical Oncology 0 17
visibility_off Exploring Machine Learning Methods for Developing a Predictive System for Parkinson's Disease Sumit Das, Tanusree Saha, Ira Nath, Dipansu Mondal 2024-07-01 Biosciences Biotechnology Research Asia 0 2
visibility_off Toward a semi-supervised learning approach to phylogenetic estimation. Daniele Silvestro, Thibault Latrille, N. Salamin 2024-06-25 Systematic biology 0 3
visibility_off Multi-TA: Multilevel Temporal Augmentation for Robust Septic Shock Early Prediction Hyunwoo Sohn, Kyungjin Park, Baekkwan Park, Min Chi 2024-08-01 Proceedings of the Thirty-ThirdInternational Joint Conference on Artificial Intelligence 0 3
visibility_off A hypercubic Mk model framework for capturing reversibility in disease, cancer, and evolutionary accumulation modelling Iain G. Johnston, Ramon Diaz-Uriarte 2024-07-01 bioRxiv 0 1
visibility_off New Horizons of Model Informed Drug Development in Rare Diseases Drug Development. Amitava Mitra, Nessy Tania, Mariam A Ahmed, Noha Rayad, Rajesh Krishna, Salwa Albusaysi, Rana B Bakhaidar, Elizabeth Shang, Maria Burian, Michelle Martin-Pozo, Islam R Younis 2024-07-11 Clinical pharmacology and therapeutics 0 3
visibility_off Context-Guided Diffusion for Out-of-Distribution Molecular and Protein Design Leo Klarner, Tim G. J. Rudner, Garrett M. Morris, Charlotte M. Deane, Y. W. Teh 2024-07-16 ArXiv 0 10
visibility_off QAFI: a novel method for quantitative estimation of missense variant impact using protein-specific predictors and ensemble learning. Selen Ozkan, Natália Padilla, Xavier de la Cruz 2024-07-24 Human genetics 0 10
visibility_off Transfer Learning Using Inaccurate Physics Rule for Streamflow Prediction Tianshu Bao, T. T. Johnson, Xiaowei Jia 2024-08-01 Proceedings of the Thirty-ThirdInternational Joint Conference on Artificial Intelligence 0 4
visibility_off Conditional Similarity Triplets Enable Covariate-Informed Representations of Single-Cell Data Chi-Jane Chen, Haidong Yi, Natalie Stanley 2024-06-12 ArXiv 0 0
visibility_off BindGPT: A Scalable Framework for 3D Molecular Design via Language Modeling and Reinforcement Learning Artem Zholus, Maksim Kuznetsov, Roman Schutski, Shayakhmetov Rim, Daniil Polykovskiy, Sarath Chandar, Alex Zhavoronkov 2024-06-06 ArXiv 0 13
visibility_off Training data composition determines machine learning generalization and biological rule discovery E. Ursu, Aygul Minnegalieva, Puneet Rawat, Maria Chernigovskaya, Robi Tacutu, G. K. Sandve, Philippe A. Robert, Victor Greiff 2024-06-23 bioRxiv 1 28
visibility_off Protein pathways as a catalyst to directed evolution of the topology of artificial neural networks Oscar Lao, Konstantinos Zacharopoulos, A. Fournaris, Rossano Schifanella, Ioannis Arapakis 2024-06-07 ArXiv 0 27
visibility_off GLDADec: marker-gene guided LDA modeling for bulk gene expression deconvolution Iori Azuma, T. Mizuno, Hiroyuki Kusuhara 2024-05-23 Briefings in Bioinformatics 0 12
visibility_off Comparing AI versus Optimization Workflows for Simulation-Based Inference of Spatial-Stochastic Systems Michael A. Ramirez-Sierra, T. Sokolowski 2024-07-15 ArXiv 0 7
visibility_off Inferring stochastic low-rank recurrent neural networks from neural data Matthijs Pals, A. E. Saugtekin, Felix Pei, Manuel Gloeckler, J. H. Macke 2024-06-24 ArXiv 0 3
visibility_off Unveiling Clonal Cell Fate and Differentiation Dynamics: A Hybrid NeuralODE-Gillespie Approach Mingze Gao, Melania Barile, Shirom Chabra, M. Haltalli, Emily F. Calderbank, Yiming Chao, E. Laurenti, B. Gottgens, Yuanhua Huang 2024-07-11 bioRxiv 0 34
visibility_off Advancing precision prognostication in neuro-oncology: Machine learning models for data-driven personalized survival predictions in IDH-wildtype glioblastoma Mert Karabacak, Pemla Jagtiani, L. Di, Ashish H Shah, Ricardo J Komotar, Konstantinos Margetis 2024-06-11 Neuro-Oncology Advances 0 12
visibility_off Kolmogorov-Arnold Networks for Time Series: Bridging Predictive Power and Interpretability Kunpeng Xu, Lifei Chen, Shengrui Wang 2024-06-04 ArXiv 8 4
visibility_off Explainable Bayesian Recurrent Neural Smoother to Capture Global State Evolutionary Correlations Shi Yan, Yan Liang, Huayu Zhang, Le Zheng, Difan Zou, Binglu Wang 2024-06-17 ArXiv 0 3
visibility_off A deep learning-based multiscale integration of spatial omics with tumor morphology Benoît Schmauch, Loïc Herpin, Antoine Olivier, Thomas Duboudin, Rémy Dubois, Lucie Gillet, Jean-Baptiste Schiratti, Valentina Di Proietto, Delphine Le Corre, Alexandre Bourgoin, Pr. Julien Taïeb, Pr. Jean-François Emile, Pr. Wolf H. Fridman, Elodie Pronier, Pr. Laurent-Puig, Eric Y. Durand 2024-07-23 bioRxiv 0 11
visibility_off Bayesian model selection for COVID-19 pandemic state estimation using extended Kalman filters: Case study for Saudi Arabia Lamia Alyami, Saptarshi Das, Stuart Townley 2024-07-25 PLOS Global Public Health 0 4
visibility_off DDN3.0: determining significant rewiring of biological network structure with differential dependency networks Yi Fu, Yingzhou Lu, Yizhi Wang, Bai Zhang, Zhen Zhang, Guoqiang Yu, Chunyu Liu, Robert Clarke, David M. Herrington, Yue Wang 2024-06-01 Bioinformatics 4 19
visibility_off Diffusion Models as Optimizers for Efficient Planning in Offline RL Renming Huang, Yunqiang Pei, Guoqing Wang, Yangming Zhang, Yang Yang, Peng Wang, H. Shen 2024-07-23 ArXiv 0 2
visibility_off Inference of Tree-Structured Auto-Regressive Models of Gene Expression Parameters from Generation-Snapshot Data Emrys Reginato, A. Marguet, Eugenio Cinquemani 2024-06-25 2024 European Control Conference (ECC) 0 6
visibility_off Deep learning of SARS-CoV-2 outbreak phylodynamics with contact tracing data Ruopeng Xie, D. Adam, Shu Hu, Benjamin J. Cowling, Olivier Gascuel, Anna Zhukova, V. Dhanasekaran, Kong S.A.R 2024-06-11 None 0 15
visibility_off Robust and highly scalable estimation of directional couplings from time-shifted signals Luca Ambrogioni, Louis Rouillard, Demian Wassermann 2024-06-04 ArXiv 0 2
visibility_off An agent-based model of behaviour change calibrated to reversal learning data Roben Delos Reyes, Hugo Lyons Keenan, Cameron Zachreson 2024-06-20 ArXiv 0 5
visibility_off Prediction of pair interactions in mixtures by matrix completion. Marco Hoffmann, N. Hayer, M. Kohns, F. Jirasek, Hans Hasse 2024-07-08 Physical chemistry chemical physics : PCCP 0 11
visibility_off Efficient Deep Model Ensemble Framework for Drug-Target Interaction Prediction. Jinhang Wei, Yangbin Zhu, Linlin Zhuo, Yang Liu, Xiangzheng Fu, Fushan Li 2024-07-22 The journal of physical chemistry letters 0 7
visibility_off Gene regulatory network structure informs the distribution of perturbation effects Matthew Aguirre, J. Spence, Guy Sella, Jonathan K. Pritchard 2024-07-05 bioRxiv 0 17
visibility_off Pharmaceutical Synthesis and Discloser Approach Using Naïve Bayesian Method in Machine Learning a. 2024-06-13 INTERANTIONAL JOURNAL OF SCIENTIFIC RESEARCH IN ENGINEERING AND MANAGEMENT 0 0
visibility_off Democratizing Infectious Disease Modeling: An AI Assistant for Generating, Simulating, and Analyzing Dynamic Models Joshua L. Proctor, Guillaume Chabot-Couture 2024-07-17 None 0 0
visibility_off CD-GPT: A Biological Foundation Model Bridging the Gap between Molecular Sequences Through Central Dogma Xiao Zhu, Chenchen Qin, Fang Wang, Fan Yang, Bing He, Yu Zhao, Jianhua Yao 2024-06-28 bioRxiv 1 5
visibility_off Learning Dynamic Bayesian Networks from Data: Foundations, First Principles and Numerical Comparisons Vyacheslav Kungurtsev, Petr Rysavy, Fadwa Idlahcen, Pavel Rytír, Ales Wodecki 2024-06-25 ArXiv 0 2
visibility_off Decomposed Linear Dynamical Systems (dLDS) models reveal context-dependent dynamic connectivity in C. elegans Eva Yezerets, Noga Mudrik, Adam S. Charles 2024-06-01 bioRxiv 1 2
visibility_off Dynamic machine learning model to forecast patient availability for clinical trials. Rajeev Kulkarni, Vivek Prabhakar Vaidya, Dhaval Parmar, Abhishek Tibrewal, R. B. Parikh 2024-06-01 Journal of Clinical Oncology 0 0
visibility_off Bayesian calibration of stochastic agent based model via random forest Connor Robertson, C. Safta, Nicholson T. Collier, J. Ozik, Jaideep Ray 2024-06-27 ArXiv 0 21
visibility_off Spatial Deconvolution of Cell Types and Cell States at Scale Utilizing TACIT Jinze Liu, Khoa Huynh, Katarzyna Tyc, B. Matuck, Quinn T. Easter, Aditya Pratapa, Nikhil V. Kumar, Paola Pérez, Rachel Kulchar, T. Pranzatelli, Deiziane Souza, Theresa Weaver, Xufeng Qu, Luiz Soares Junior, Marisa Dolhnokoff, David E. Kleiner, Stephen Hewitt, Luiz Fernando Ferraz da Silva, V. Rocha, B.M. Warner, K. Byrd 2024-06-27 Research Square 0 8
visibility_off Φ-Space: Continuous phenotyping of single-cell multi-omics data Jiadong Mao, Yidi Deng, K. Lê Cao 2024-06-22 bioRxiv 0 29
visibility_off Foundation models in molecular biology Yunda Si, Jiawei Zou, Yicheng Gao, Guohui Chuai, Qi Liu, Luonan Chen 2024-06-30 Biophysics Reports 0 13
visibility_off Predictive Modeling for Cancer Diagnosis using Machine Learning Dr.K.Jamberi, Nagaraj C, Dr.Hemalatha 2024-07-25 International Journal of Innovative Research in Engineering & Multidisciplinary Physical Sciences 0 0
visibility_off An Ensemble Cascade Forest‐Based Framework for Multi‐Omics Drug Response and Synergy Prediction Ruijiang Li, Binsheng Sui, Dongjing Leng, Song He, Kunhong Liu, Xiaochen Bo 2024-06-09 Advanced Intelligent Systems 0 11
visibility_off Machine learning of cellular metabolic rewiring J. Xavier 2024-07-02 Biology Methods & Protocols 0 44
visibility_off Step Forward Cross Validation for Bioactivity Prediction: Out of Distribution Validation in Drug Discovery Udit Surya Saha, Michele Vendruscolo, A. Carpenter, Shantanu Singh, Andreas Bender, Srijit Seal 2024-07-04 bioRxiv 0 3
visibility_off Interpretable Machine Learning for Chronic Kidney Disease Diagnosis: A Gaussian Processes Approach T. R. Noviandy, Ghifari Maulana Idroes, M. Syukri, R. Idroes 2024-06-29 Indonesian Journal of Case Reports 0 23
visibility_off Restoring data balance via generative models of T-cell receptors for antigen-binding prediction Emanuele Loffredo, Mauro Pastore, Simona Cocco, R. Monasson 2024-07-15 bioRxiv 0 40
visibility_off Data-Driven Computing Methods for Nonlinear Physics Systems with Geometric Constraints Yunjin Tong 2024-06-20 ArXiv 0 0
visibility_off Deep learning models for predicting the survival of patients with medulloblastoma based on a surveillance, epidemiology, and end results analysis Meng Sun, Jikui Sun, M. Li 2024-06-24 Scientific Reports 0 1
visibility_off Chimera: Effectively Modeling Multivariate Time Series with 2-Dimensional State Space Models Ali Behrouz, Michele Santacatterina, Ramin Zabih 2024-06-06 ArXiv 0 8
visibility_off Drug-drug interactions and synergy: from pharmacological models to clinical application. L. Calzetta, Clive P. Page, M. Matera, Mario Cazzola, P. Rogliani 2024-07-15 Pharmacological reviews 0 52
visibility_off tauX: A Gene Expression Ratio Strategy to Improve Machine Learning Applications in Precision Medicine Jacob Pfeil, Liqian Ma, Hin Ching Lo, Tolga Turan, R. T. McLaughlin, Xu Shi, Severiano Villarruel, Stephen Wilson, Xi Zhao, Josue Samayoa, Kyle Halliwill 2024-07-04 bioRxiv 0 1
visibility_off Multimodal Prototyping for cancer survival prediction Andrew H. Song, Richard J. Chen, Guillaume Jaume, Anurag J. Vaidya, Alexander S. Baras, Faisal Mahmood 2024-06-28 ArXiv 0 15
visibility_off Expressive Symbolic Regression for Interpretable Models of Discrete-Time Dynamical Systems Adarsh Iyer, N. Boddupalli, Jeff Moehlis 2024-06-05 ArXiv 0 5
visibility_off Advancing the Boundary of Pre-trained Models for Drug Discovery: Interpretable Fine-Tuning Empowered by Molecular Physicochemical Properties. Xiaoqing Lian, Jie Zhu, Tianxu Lv, Xiaoyan Hong, Longzhen Ding, Wei Chu, Jianming Ni, Xiang Pan 2024-06-18 IEEE journal of biomedical and health informatics 0 5
visibility_off Contrastive Learning for Robust Cell Annotation and Representation from Single-Cell Transcriptomics Leo Andrekson, Rocío Mercado 2024-06-24 bioRxiv 0 0
visibility_off A modeling framework for detecting and leveraging node-level information in Bayesian network inference. Xiaoyue Xi, H. Ruffieux 2024-06-25 Biostatistics 0 10
visibility_off A Large Language Model Pipeline for Breast Cancer Oncology Tristen Pool, Dennis Trujillo 2024-06-10 ArXiv 0 0
visibility_off Nutmeg and SPICE: Models and Data for Biomolecular Machine Learning Peter K. Eastman, Benjamin P. Pritchard, J. Chodera, T. Markland 2024-06-18 ArXiv 0 57
visibility_off Relationship between prostate-specific antigen, alkaline phosphatase levels, and time-to-tumor shrinkage: understanding the progression of prostate cancer in a longitudinal study Madiha Liaqat, Rehan Ahmad Khan, Florian Fischer, Shahid Kamal 2024-07-02 BMC Urology 0 5
visibility_off Interpretable variational encoding of genotypes identifies comprehensive clonality and lineages in single cells geometrically Hoi Man Chung, Yuanhua Huang 2024-07-08 bioRxiv 0 14
visibility_off Simulation-based Inference on Virtual Brain Models of Disorders Meysam Hashemi, Abolfazl Ziaeemehr, M. Woodman, Jan Fousek, S. Petkoski, V. Jirsa 2024-07-11 Machine Learning: Science and Technology 0 17
visibility_off Bayesian inference of covariate-parameter relationships for population modelling Han Cheng Lie 2024-07-12 ArXiv 0 0
visibility_off RTF: An R package for modelling time course data Eva Brombacher, Clemens Kreutz 2024-06-26 bioRxiv 0 1
visibility_off Contrastive learning of T cell receptor representations Yuta Nagano, Andrew Pyo, Martina Milighetti, James Henderson, John Shawe-Taylor, Benjamin Chain, Andreas Tiffeau-Mayer 2024-06-10 ArXiv 0 4
visibility_off Gaussian process regression + deep neural network autoencoder for probabilistic surrogate modeling in nonlinear mechanics of solids Saurabh Deshpande, Hussein Rappel, Mark Hobbs, Stéphane P. A. Bordas, Jakub Lengiewicz 2024-07-15 ArXiv 0 4
visibility_off GeoMFormer: A General Architecture for Geometric Molecular Representation Learning Tianlang Chen, Shengjie Luo, Di He, Shuxin Zheng, Tie-Yan Liu, Liwei Wang 2024-06-24 ArXiv 1 17
visibility_off Joint identification of spatially variable genes via a network-assisted Bayesian regularization approach Mingcong Wu, Yang Li, Shuangge Ma, Mengyun Wu 2024-07-07 ArXiv 0 1
visibility_off Reducing phenotype-structured PDE models of cancer evolution to systems of ODEs: a generalised moment dynamics approach Chiara Villa, P. K. Maini, Alexander P Browning, A. Jenner, Sara Hamis, Tyler Cassidy 2024-06-03 ArXiv 0 26
visibility_off A Cyclical Route Linking Fundamental Mechanism and AI Algorithm: An Example from Poisson's Ratio in Amorphous Networks Changliang Zhu, Chenchao Fang, Zhipeng Jin, Baowen Li, Xiangying Shen, Lei Xu 2023-12-06 ArXiv 0 4
visibility_off Synergistic Biophysics and Machine Learning Modeling to Rapidly Predict Cardiac Growth Probability Clara E. Jones, Pim A Oomen 2024-07-22 bioRxiv 0 0
visibility_off Bayesian Deep Generative Models for Replicated Networks with Multiscale Overlapping Clusters Yuren Zhou, Yuqi Gu, D. Dunson 2024-05-31 ArXiv 0 2
visibility_off SIU: A Million-Scale Structural Small Molecule-Protein Interaction Dataset for Unbiased Bioactivity Prediction Yanwen Huang, Bowen Gao, Yinjun Jia, Hongbo Ma, Wei-Ying Ma, Ya-Qin Zhang, Yanyan Lan 2024-06-13 ArXiv 0 4
visibility_off Artificial Neural Network Prediction of Mortality in Cancer Patients Presenting for Radiation Therapy at a Multisite Institution E. Shahrabani, Michael Shen, Yen-Ruh Wuu, Louis Potters, Bhupesh Parashar 2024-07-01 Cureus 0 1
visibility_off Learning dynamical models from stochastic trajectories Pierre Ronceray 2024-06-04 ArXiv 0 0
visibility_off Evaluating the forecasting performance of ensemble sub-epidemic frameworks and other time series models for the 2022–2023 mpox epidemic A. Bleichrodt, R. Luo, A. Kirpich, Gerardo Chowell 2024-07-01 Royal Society Open Science 0 13
visibility_off Neural Lineage Runpeng Yu, Xinchao Wang 2024-06-17 ArXiv 0 4
visibility_off Feature Importance in Predicting Clinical Outcome: Statistics vs. Explainable Artificial Intelligence Parisa Amin 2024-07-23 bioRxiv 0 0
visibility_off Do Deep Learning Models for Co-Folding Learn the Physics of Protein-Ligand Interactions? Matthew Masters, Amr H. Mahmoud, Markus A. Lill 2024-06-04 bioRxiv 0 9
visibility_off Machine learning identifies prognostic subtypes of the tumor microenvironment of NSCLC Duo Yu, M. Kane, Eugene J. Koay, I. Wistuba, Brian,P. Hobbs 2024-07-01 Scientific Reports 0 5
visibility_off Fitting micro-kinetic models to transient kinetics of temporal analysis of product reactors using kinetics-informed neural networks Dingqi Nai, G. S. Gusmão, Zachary Kilwein, Fani Boukouvala, A. Medford 2024-06-20 ArXiv 0 40
visibility_off Stochastic Machine Learning Models for Mutation Rate Analysis of Malignant Cancer Cells in Patients with Acute Lymphoblastic Leukemia Martsenyuk Vasyl, Abubakar Umar Sadiq, Sverstiuk Andriy, Dimitrov Georgi, Gancarczyk Tomasz 2024-07-05 International Journal of Circuits, Systems and Signal Processing 0 0
visibility_off An Optimal Transport Approach for Network Regression Alex G. Zalles, Kai M. Hung, Ann E. Finneran, L. Beaudrot, C'esar A. Uribe 2024-06-18 ArXiv 0 22
visibility_off Predicting the Tumor Microenvironment Composition and Immunotherapy Response in Non-Small Cell Lung Cancer from Digital Histopathology Images Sushant Patkar, Alex Chen, A. Basnet, Amber Bixby, Rahul Rajendran, Rachel Chernet, Susan Faso, Prashant A. Kumar, Devashish Desai, Ola El-Zammar, Christopher Curtiss, Saverio J. Carello, Michel Nasr, Peter Choyke, Stephanie Harmon, B. Turkbey, Tamara Jamaspishvili 2024-06-12 None 0 84
visibility_off Current genomic deep learning models display decreased performance in cell type specific accessible regions Pooja Kathail, Richard W. Shuai, Ryan Chung, C. Ye, Gabriel B. Loeb, Nilah M. Ioannidis 2024-07-10 bioRxiv 0 12
visibility_off Physics-informed neural networks for parameter learning of wildfire spreading K. Vogiatzoglou, C. Papadimitriou, V. Bontozoglou, Konstantinos Ampountolas 2024-06-20 ArXiv 0 45
visibility_off MiRAGE: mining relationships for advanced generative evaluation in drug repositioning Aria Hassanali Aragh, Pegah Givehchian, Razieh Moslemi Amirani, Raziyeh Masumshah, C. Eslahchi 2024-05-23 Briefings in Bioinformatics 0 18
visibility_off Individual Causal Structure Learning from Population Data Wei Chen, Xiaokai Huang, Zijian Li, Ruichu Cai, Zhiyi Huang, Zhifeng Hao 2024-08-01 Proceedings of the Thirty-ThirdInternational Joint Conference on Artificial Intelligence 0 14
visibility_off Biologically meaningful genome interpretation models to address data underdetermination for the leaf and seed ionome prediction in Arabidopsis thaliana Daniele Raimondi, Antoine Passemiers, N. Verplaetse, Massimiliano Corso, Ángel Ferrero-Serrano, Nelson Nazzicari, Filippo Biscarini, Piero Fariselli, Yves Moreau 2024-06-08 Scientific Reports 0 9
visibility_off DeepMol: An Automated Machine and Deep Learning Framework for Computational Chemistry João Correia, João Capela, M. Rocha 2024-06-01 bioRxiv 0 4
visibility_off Bayesian Occam’s Razor to Optimize Models for Complex Systems Chenxi Wang, Jihui Zhao, Jingjing Zheng, Barak Raveh, Xuming He, Liping Sun 2024-06-02 bioRxiv 0 9
visibility_off Learning Patterns from Biological Networks: A Compounded Burr Probability Model Tanujit Chakraborty, Shraddha M. Naik, Swarup Chattopadhyay, Suchismita Das 2024-07-05 ArXiv 1 18
visibility_off Diffusion Spectral Representation for Reinforcement Learning Dmitry Shribak, Chen-Xiao Gao, Yitong Li, Chenjun Xiao, Bo Dai 2024-06-23 ArXiv 0 0
visibility_off Impact of Hyperparameter Optimization to Enhance Machine Learning Performance: A Case Study on Breast Cancer Recurrence Prediction Lorena González-Castro, Marcela Chávez, Patrick Duflot, Valérie Bleret, G. Del Fiol, M. López-Nores 2024-07-06 Applied Sciences 0 19
visibility_off Interpretable-by-design Deep Survival Analysis for Disease Progression Modeling J. Gervelmeyer, S. Mueller, K. Djoumessi, D. Merle, S. J. Clark, L. Koch, P. Berens 2024-07-11 None 0 0
visibility_off Deep Learning-Driven Discovery of FDA-Approved BCL2 Inhibitors: In Silico Analysis Using a Deep Generative Model NeuralPlexer for Drug Repurposing in Cancer Treatment Ehsan Sayyah, Huseyin Tunc, S. Durdağı 2024-07-17 bioRxiv 0 36
visibility_off A Study on the Robustness and Stability of Explainable Deep Learning in an Imbalanced Setting: The Exploration of the Conformational Space of G Protein-Coupled Receptors M. A. Gutierrez-Mondragon, Alfredo Vellido, Caroline König 2024-06-01 International Journal of Molecular Sciences 0 2
visibility_off Improving Molecular Dynamics Simulations for Solid-Liquid Interface with Machine Learning Interatomic Potentials. Pengfei Hou, Yumiao Tian, Xing Meng 2024-06-14 Chemistry 0 1
visibility_off Learning Transformed Dynamics for Efficient Control Purposes C. Ghnatios, Joel Mouterde, Jerome Tomezyk, Joaquim Da Silva, Francisco Chinesta 2024-07-19 Mathematics 0 13
visibility_off Building multiscale models with PhysiBoSS, an agent-based modeling tool Marco Ruscone, Andrea Checcoli, Randy W. Heiland, Emmanuel Barillot, P. Macklin, Laurence Calzone, Vincent Noel 2024-06-26 ArXiv 0 29
visibility_off Recurrent neural chemical reaction networks that approximate arbitrary dynamics Alexander Dack, Benjamin Qureshi, T. Ouldridge, Tomislav Plesa 2024-06-05 ArXiv 0 32
visibility_off Predicting Tumor Dynamics Post-Staged GKRS: Machine Learning Models in Brain Metastases Prognosis A. Trofin, C. Buzea, Razvan-Cristian Buga, M. Agop, L. Ochiuz, D. Iancu, Lucian Eva 2024-06-01 Diagnostics 0 25
visibility_off Physics-Informed Neural Networks for Dynamic Process Operations with Limited Physical Knowledge and Data M. Velioglu, Song Zhai, Sophia Rupprecht, Alexander Mitsos, Andreas Jupke, M. Dahmen 2024-06-03 ArXiv 0 13
visibility_off Advanced methods for gene network identification and noise decomposition from single-cell data Zhou Fang, Ankit Gupta, Sant Kumar, Mustafa Khammash 2024-06-08 Nature Communications 0 16
visibility_off A Comprehensive review of data-driven approaches for forecasting production from unconventional reservoirs: best practices and future directions H. Rahmanifard, Ian Gates 2024-07-22 Artificial Intelligence Review 0 7
visibility_off Machine Learning of Reactive Potentials. Yinuo Yang, Shuhao Zhang, Kavindri D. Ranasinghe, O. Isayev, A. Roitberg 2024-06-01 Annual review of physical chemistry 1 57
visibility_off Bridging the gap between two-stage and joint models: The case of tumor growth inhibition and overall survival models. Danilo Alvares, F. Mercier 2024-06-03 Statistics in medicine 1 13
visibility_off Particle uptake in cancer cells can predict malignancy and drug resistance using machine learning. Yoel Goldstein, Ora T. Cohen, Ori Wald, Danny Bavli, Tommy Kaplan, Ofra Benny 2024-05-31 Science advances 0 26
visibility_off Evaluation of normalization methods for predicting quantitative phenotypes in metagenomic data analysis Beibei Wang, Yihui Luan 2024-06-05 Frontiers in Genetics 0 1
visibility_off QC-GN2oMS2: a Graph Neural Net for High Resolution Mass Spectra Prediction. Richard Overstreet, Ethan King, Grady Clopton, Julia Nguyen, Danielle Ciesielski 2024-07-16 Journal of chemical information and modeling 0 1
visibility_off Mixed effect estimation in deep compartment models: Variational methods outperform first-order approximations. A. Janssen, Frank C Bennis, M. Cnossen, R. Mathôt 2024-07-04 Journal of pharmacokinetics and pharmacodynamics 0 30
visibility_off MMIL: A novel algorithm for disease associated cell type discovery Erin Craig, Timothy Keyes, J. Sarno, Maxim E. Zaslavsky, Garry Nolan, Kara Davis, Trevor Hastie, R. Tibshirani 2024-06-12 ArXiv 0 154
visibility_off Physics-embedded Fourier Neural Network for Partial Differential Equations Qingsong Xu, Nils Thuerey, Yilei Shi, Jonathan Bamber, Chaojun Ouyang, Xiao Xiang Zhu 2024-07-15 ArXiv 0 19
visibility_off CellRank 2: unified fate mapping in multiview single-cell data P. Weiler, Marius Lange, Michal Klein, D. Pe’er, F. Theis 2024-06-13 Nature Methods 0 21
visibility_off Machine Learning Derived Collective Variables for the Study of Protein Homodimerization in Membrane. Ayan Majumder, John E Straub 2024-06-25 Journal of chemical theory and computation 0 1
visibility_off Using state space models to understand trait evolution in fossil lineages Gene Hunt, Wilmer Martinez Rivera, Melanie Hopkins, John Fricks, B. Sterner 2024-07-19 bioRxiv 0 10
visibility_off Deep representation learning of chemical-induced transcriptional profile for phenotype-based drug discovery X. Tong, Ning Qu, Xiangtai Kong, Shengkun Ni, Jingyi Zhou, Kun Wang, Lehan Zhang, Yiming Wen, Jiangshan Shi, Sulin Zhang, Xutong Li, Mingyue Zheng 2024-06-25 Nature Communications 0 12
visibility_off ADToolbox: Incorporating Metagenomics Data for Improved Prediction of Anaerobic Digestion Dynamics Parsa Ghadermazi, Jorge L. Rico, Ethan Rimmelman, Siri Stenmark, Kenneth F. Reardon, Susan De Long, Siu Hung Joshua Chan 2024-07-19 bioRxiv 0 3
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