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Georgios A. Pavlopoulos - Related publications

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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Pirch S, Müller F, Iofinova E, Pazmandi J, Hütter CVR, Chiettini M, Sin C, Boztug K, Podkosova I, Kaufmann H, Menche J. The VRNetzer platform enables interactive network analysis in Virtual Reality. Nature Communications. 12: 2432. PMID 33893283 DOI: 10.1038/s41467-021-22570-w   
2021 Nguyen T, Lee S, Quinn T, Truong B, Li X, Tran T, Venkatesh S, Le TD. PAN: Personalized Annotation-based Networks for the Prediction of Breast Cancer Relapse. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 33909569 DOI: 10.1109/TCBB.2021.3076422   
2021 Calura E, Martini P. Summarizing RNA-Seq Data or Differentially Expressed Genes Using Gene Set, Network, or Pathway Analysis. Methods in Molecular Biology (Clifton, N.J.). 2284: 147-179. PMID 33835442 DOI: 10.1007/978-1-0716-1307-8_9   
2021 Katz S, Song J, Webb KP, Lounsbury NW, Bryant CE, Fraser IDC. SIGNAL: A web-based iterative analysis platform integrating pathway and network approaches optimizes hit selection from genome-scale assays. Cell Systems. 12: 338-352.e5. PMID 33894945 DOI: 10.1016/j.cels.2021.03.001   
2021 Abbas K, Abbasi A, Dong S, Niu L, Yu L, Chen B, Cai SM, Hasan Q. Application of network link prediction in drug discovery. Bmc Bioinformatics. 22: 187. PMID 33845763 DOI: 10.1186/s12859-021-04082-y   
2021 Shang Q, Zhang B, Li H, Deng Y. Identifying influential nodes: A new method based on network efficiency of edge weight updating. Chaos (Woodbury, N.Y.). 31: 033120. PMID 33810754 DOI: 10.1063/5.0033197   
2021 Lazareva O, Baumbach J, List M, Blumenthal DB. On the limits of active module identification. Briefings in Bioinformatics. PMID 33782690 DOI: 10.1093/bib/bbab066   
2021 Gao LL, Witten D, Bien J. Testing for association in multi-view network data. Biometrics. PMID 33792914 DOI: 10.1111/biom.13464   
2021 Lopes MB, Martins EP, Vinga S, Costa BM. The Role of Network Science in Glioblastoma. Cancers. 13. PMID 33801334 DOI: 10.3390/cancers13051045   
2021 Ruiz-Perez D, Lugo-Martinez J, Bourguignon N, Mathee K, Lerner B, Bar-Joseph Z, Narasimhan G. Dynamic Bayesian Networks for Integrating Multi-omics Time Series Microbiome Data. Msystems. 6. PMID 33785573 DOI: 10.1128/mSystems.01105-20   
2021 Ogris C, Hu Y, Arloth J, Müller NS. Versatile knowledge guided network inference method for prioritizing key regulatory factors in multi-omics data. Scientific Reports. 11: 6806. PMID 33762588 DOI: 10.1038/s41598-021-85544-4   
2021 Sekaran TSG, Kedilaya VR, Kumari SN, Shetty P, Gollapalli P. Exploring the differentially expressed genes in human lymphocytes upon response to ionizing radiation: a network biology approach. Radiation Oncology Journal. 39: 48-60. PMID 33794574 DOI: 10.3857/roj.2021.00045   
2021 Guo WF, Yu X, Shi QQ, Liang J, Zhang SW, Zeng T. Performance assessment of sample-specific network control methods for bulk and single-cell biological data analysis. Plos Computational Biology. 17: e1008962. PMID 33956788 DOI: 10.1371/journal.pcbi.1008962   
2021 Li X, Zhang W, Zhang J, Li G. ModularBoost: an efficient network inference algorithm based on module decomposition. Bmc Bioinformatics. 22: 153. PMID 33761871 DOI: 10.1186/s12859-021-04074-y   
2021 Zhang X, Yang L, Zhang B, Liu Y, Jiang D, Qin X, Hao M. Multi-Scale Aggregation Graph Neural Networks Based on Feature Similarity for Semi-Supervised Learning. Entropy (Basel, Switzerland). 23. PMID 33800642 DOI: 10.3390/e23040403   
2021 Zhang C, Lei X, Liu L. Predicting Metabolite-Disease Associations Based on LightGBM Model. Frontiers in Genetics. 12: 660275. PMID 33927752 DOI: 10.3389/fgene.2021.660275   
2021 Tang M, Pan Q, Qian Y, Tian Y, Al-Nabhan N, Wang X. Parallel label propagation algorithm based on weight and random walk. Mathematical Biosciences and Engineering : Mbe. 18: 1609-1628. PMID 33757201 DOI: 10.3934/mbe.2021083   
2021 Aguayo L, Fortes S, Baena C, Baena E, Barco R. A Multivariate Time-Series Based Approach for Quality Modeling in Wireless Networks. Sensors (Basel, Switzerland). 21. PMID 33809271 DOI: 10.3390/s21062017   
2021 Lv Y, Huang S, Zhang T, Gao B. Application of Multilayer Network Models in Bioinformatics. Frontiers in Genetics. 12: 664860. PMID 33868392 DOI: 10.3389/fgene.2021.664860   
2021 Son J, Kim D. Development of a graph convolutional neural network model for efficient prediction of protein-ligand binding affinities. Plos One. 16: e0249404. PMID 33831016 DOI: 10.1371/journal.pone.0249404   
2021 Guo S, Huang L, Yao G, Wang Y, Guan H, Bai T. Extracting Biomedical Entity Relations using Biological Interaction Knowledge. Interdisciplinary Sciences, Computational Life Sciences. PMID 33730356 DOI: 10.1007/s12539-021-00425-8   
2021 Avershina E, Sharma P, Taxt AM, Singh H, Frye SA, Paul K, Kapil A, Naseer U, Kaur P, Ahmad R. AMR-Diag: Neural network based genotype-to-phenotype prediction of resistance towards β-lactams in and . Computational and Structural Biotechnology Journal. 19: 1896-1906. PMID 33897984 DOI: 10.1016/j.csbj.2021.03.027   
2021 Mazein A, Rougny A, Karr JR, Saez-Rodriguez J, Ostaszewski M, Schneider R. Reusability and composability in process description maps: RAS-RAF-MEK-ERK signalling. Briefings in Bioinformatics. PMID 33834185 DOI: 10.1093/bib/bbab103   
2021 Belyaeva A, Squires C, Uhler C. DCI: Learning Causal Differences between Gene Regulatory Networks. Bioinformatics (Oxford, England). PMID 33704425 DOI: 10.1093/bioinformatics/btab167   
2021 Verma S, Wang C, Zhu L, Liu W. Attn-HybridNet: Improving Discriminability of Hybrid Features With Attention Fusion. Ieee Transactions On Cybernetics. PMID 33739927 DOI: 10.1109/TCYB.2021.3060176   
2021 Singh G, Papoutsoglou EA, Keijts-Lalleman F, Vencheva B, Rice M, Visser RGF, Bachem CWB, Finkers R. Extracting knowledge networks from plant scientific literature: potato tuber flesh color as an exemplary trait. Bmc Plant Biology. 21: 198. PMID 33894758 DOI: 10.1186/s12870-021-02943-5   
2021 Butt BH, Rafi M, Sabih M. A systematic metadata harvesting workflow for analysing scientific networks. Peerj. Computer Science. 7: e421. PMID 33817056 DOI: 10.7717/peerj-cs.421   
2021 Zalmijn E, Heskes T, Claassen T. Spectral Ranking of Causal Influence in Complex Systems. Entropy (Basel, Switzerland). 23. PMID 33804599 DOI: 10.3390/e23030369   
2021 Nan M, Trăscău M, Florea AM, Iacob CC. Comparison between Recurrent Networks and Temporal Convolutional Networks Approaches for Skeleton-Based Action Recognition. Sensors (Basel, Switzerland). 21. PMID 33803929 DOI: 10.3390/s21062051   
2021 Karp PD, Midford PE, Caspi R, Khodursky A. Pathway size matters: the influence of pathway granularity on over-representation (enrichment analysis) statistics. Bmc Genomics. 22: 191. PMID 33726670 DOI: 10.1186/s12864-021-07502-8   
2021 Wang W, Zhang X, Dai DQ. DeFusion: a denoised network regularization framework for multi-omics integration. Briefings in Bioinformatics. PMID 33822879 DOI: 10.1093/bib/bbab057   
2021 AbdelAziz AM, Soliman T, Ghany KKA, Sewisy A. A hybrid multi-objective whale optimization algorithm for analyzing microarray data based on Apache Spark. Peerj. Computer Science. 7: e416. PMID 33834101 DOI: 10.7717/peerj-cs.416   
2021 Ghosh S, Datta A, Choi H. multiSLIDE is a web server for exploring connected elements of biological pathways in multi-omics data. Nature Communications. 12: 2279. PMID 33863886 DOI: 10.1038/s41467-021-22650-x   
2021 Lu T, Chen K, Zhang Y, Deng Q. Research on Dynamic Evolution Model and Method of Communication Network Based on Real War Game. Entropy (Basel, Switzerland). 23. PMID 33923997 DOI: 10.3390/e23040487   
2021 Dreher SD, Krska SW. Chemistry Informer Libraries: Conception, Early Experience, and Role in the Future of Cheminformatics. Accounts of Chemical Research. 54: 1586-1596. PMID 33723992 DOI: 10.1021/acs.accounts.0c00760   
2021 Zhang Y, Li Y, Deng W, Huang K, Yang C. Complex networks identification using Bayesian model with independent Laplace prior. Chaos (Woodbury, N.Y.). 31: 013107. PMID 33754749 DOI: 10.1063/5.0031134   
2021 Arnaboldi V, Cho J, Sternberg PW. Wormicloud: a new text summarization tool based on word clouds to explore the C. elegans literature. Database : the Journal of Biological Databases and Curation. 2021. PMID 33787871 DOI: 10.1093/database/baab015   
2021 Xu J, Li F, Leier A, Xiang D, Shen HH, Marquez Lago TT, Li J, Yu DJ, Song J. Comprehensive assessment of machine learning-based methods for predicting antimicrobial peptides. Briefings in Bioinformatics. PMID 33774670 DOI: 10.1093/bib/bbab083   
2021 Opzoomer JW, Timms JA, Blighe K, Mourikis TP, Chapuis N, Bekoe R, Kareemaghay S, Nocerino P, Apollonio B, Ramsay AG, Tavassoli M, Harrison C, Ciccarelli FD, Parker P, Fontenay M, et al. ImmunoCluster provides a computational framework for the non-specialist to profile high- dimensional cytometry data. Elife. 10. PMID 33929322 DOI: 10.7554/eLife.62915   
2021 Chen H, Guo Y, He Y, Ji J, Liu L, Shi Y, Wang Y, Yu L, Zhang X, . Simultaneous differential network analysis and classification for matrix-variate data with application to brain connectivity. Biostatistics (Oxford, England). PMID 33769450 DOI: 10.1093/biostatistics/kxab007   
2021 Lee J, Yoon M, Noh S. Advanced Network Sampling with Heterogeneous Multiple Chains. Sensors (Basel, Switzerland). 21. PMID 33803175 DOI: 10.3390/s21051905   
2021 Tozzo V, Azencott CA, Fiorini S, Fava E, Trucco A, Barla A. Where Do We Stand in Regularization for Life Science Studies? Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. PMID 33926217 DOI: 10.1089/cmb.2019.0371   
2021 Qureshi KN, Alhudhaif A, Anwar RW, Bhati SN, Jeon G. Fully Integrated Data Communication Framework by Using Visualization Augmented Reality for Internet of Things Networks. Big Data. PMID 33989047 DOI: 10.1089/big.2020.0282   
2021 Marcos-Zambrano LJ, Karaduzovic-Hadziabdic K, Loncar Turukalo T, Przymus P, Trajkovik V, Aasmets O, Berland M, Gruca A, Hasic J, Hron K, Klammsteiner T, Kolev M, Lahti L, Lopes MB, Moreno V, et al. Applications of Machine Learning in Human Microbiome Studies: A Review on Feature Selection, Biomarker Identification, Disease Prediction and Treatment. Frontiers in Microbiology. 12: 634511. PMID 33737920 DOI: 10.3389/fmicb.2021.634511   
2021 Boluki S, Qian X, Dougherty ER. Optimal Bayesian supervised domain adaptation for RNA sequencing data. Bioinformatics (Oxford, England). PMID 33822889 DOI: 10.1093/bioinformatics/btab228   
2021 Clement TJ, Baalhuis EB, Teusink B, Bruggeman FJ, Planqué R, de Groot DH. Unlocking Elementary Conversion Modes: ecmtool Unveils All Capabilities of Metabolic Networks. Patterns (New York, N.Y.). 2: 100177. PMID 33511367 DOI: 10.1016/j.patter.2020.100177   
2021 Smith PF, Zheng Y. Applications of Multivariate Statistical and Data Mining Analyses to the Search for Biomarkers of Sensorineural Hearing Loss, Tinnitus, and Vestibular Dysfunction. Frontiers in Neurology. 12: 627294. PMID 33746881 DOI: 10.3389/fneur.2021.627294   
2021 Jiang L, Fang H. Genetic Interaction Network Interpretation: A Tidy Data Science Perspective. Methods in Molecular Biology (Clifton, N.J.). 2212: 347-376. PMID 33733367 DOI: 10.1007/978-1-0716-0947-7_22   
2021 Jones D, Kim H, Zhang X, Zemla A, Stevenson G, Bennett WFD, Kirshner D, Wong SE, Lightstone FC, Allen JE. Improved Protein-Ligand Binding Affinity Prediction with Structure-Based Deep Fusion Inference. Journal of Chemical Information and Modeling. PMID 33754707 DOI: 10.1021/acs.jcim.0c01306   
2021 Yu Z, Lu J, Jin Y, Yang Y. KenDTI: an ensemble model based on network integration and CNN for drug-target interaction prediction. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 33877984 DOI: 10.1109/TCBB.2021.3074401