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For: Friedman N. Inferring cellular networks using probabilistic graphical models. Science 2004;303:799-805. [PMID: 14764868 DOI: 10.1126/science.1094068] [Citation(s) in RCA: 598] [Impact Index Per Article: 28.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Number Cited by Other Article(s)
1
Hammond J, Smith VA. Bayesian networks for network inference in biology. J R Soc Interface 2025;22:20240893. [PMID: 40328299 PMCID: PMC12055290 DOI: 10.1098/rsif.2024.0893] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2024] [Revised: 02/14/2025] [Accepted: 02/20/2025] [Indexed: 05/08/2025]  Open
2
Chen L, Acharyya S, Luo C, Ni Y, Baladandayuthapani V. A probabilistic modeling framework for genomic networks incorporating sample heterogeneity. CELL REPORTS METHODS 2025;5:100984. [PMID: 39954675 PMCID: PMC11955270 DOI: 10.1016/j.crmeth.2025.100984] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2024] [Revised: 10/28/2024] [Accepted: 01/24/2025] [Indexed: 02/17/2025]
3
Lechon T, Kent NA, Murray JAH, Scofield S. Regulation of meristem and hormone function revealed through analysis of directly-regulated SHOOT MERISTEMLESS target genes. Sci Rep 2025;15:240. [PMID: 39747964 PMCID: PMC11696002 DOI: 10.1038/s41598-024-83985-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2024] [Accepted: 12/18/2024] [Indexed: 01/04/2025]  Open
4
Liu Z, Lin H, Li X, Xue H, Lu Y, Xu F, Shuai J. The network structural entropy for single-cell RNA sequencing data during skin aging. Brief Bioinform 2024;26:bbae698. [PMID: 39757115 DOI: 10.1093/bib/bbae698] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2024] [Revised: 11/29/2024] [Accepted: 12/18/2024] [Indexed: 01/07/2025]  Open
5
Li Y, Scheel-Sailer A, Riener R, Paez-Granados D. Mixed-variable graphical modeling framework towards risk prediction of hospital-acquired pressure injury in spinal cord injury individuals. Sci Rep 2024;14:25067. [PMID: 39443567 PMCID: PMC11499609 DOI: 10.1038/s41598-024-75691-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2024] [Accepted: 10/08/2024] [Indexed: 10/25/2024]  Open
6
Hsiao YC, Dutta A. Network Modeling and Control of Dynamic Disease Pathways, Review and Perspectives. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024;21:1211-1230. [PMID: 38498762 DOI: 10.1109/tcbb.2024.3378155] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/20/2024]
7
Jang YH, Lee SH, Han J, Cheong S, Shim SK, Han JK, Ryoo SK, Hwang CS. Memristive Crossbar Array-Based Probabilistic Graph Modeling. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2024;36:e2403904. [PMID: 39030848 DOI: 10.1002/adma.202403904] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2024] [Revised: 07/05/2024] [Indexed: 07/22/2024]
8
Liu J, Wang Y, Men J, Wang H. Identifying vital nodes for yeast network by dynamic network entropy. BMC Bioinformatics 2024;25:242. [PMID: 39026169 PMCID: PMC11555816 DOI: 10.1186/s12859-024-05863-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2023] [Accepted: 07/10/2024] [Indexed: 07/20/2024]  Open
9
Niu Y, Luo J, Zong C. Single-cell total-RNA profiling unveils regulatory hubs of transcription factors. Nat Commun 2024;15:5941. [PMID: 39009595 PMCID: PMC11251146 DOI: 10.1038/s41467-024-50291-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Accepted: 07/03/2024] [Indexed: 07/17/2024]  Open
10
Huo Q, Song R, Ma Z. Recent advances in exploring transcriptional regulatory landscape of crops. FRONTIERS IN PLANT SCIENCE 2024;15:1421503. [PMID: 38903438 PMCID: PMC11188431 DOI: 10.3389/fpls.2024.1421503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/22/2024] [Accepted: 05/23/2024] [Indexed: 06/22/2024]
11
Zhao Y, Ansarullah, Kumar P, Mahoney JM, He H, Baker C, George J, Li S. Causal network perturbation analysis identifies known and novel type-2 diabetes driver genes. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.05.22.595431. [PMID: 38826370 PMCID: PMC11142180 DOI: 10.1101/2024.05.22.595431] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2024]
12
Michoel T, Zhang JD. Causal inference in drug discovery and development. Drug Discov Today 2023;28:103737. [PMID: 37591410 DOI: 10.1016/j.drudis.2023.103737] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2022] [Revised: 07/31/2023] [Accepted: 08/10/2023] [Indexed: 08/19/2023]
13
Niu Y, Ni Y, Pati D, Mallick BK. Covariate-Assisted Bayesian Graph Learning for Heterogeneous Data. J Am Stat Assoc 2023;119:1985-1999. [PMID: 39507103 PMCID: PMC11536292 DOI: 10.1080/01621459.2023.2233744] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Revised: 06/01/2023] [Accepted: 06/25/2023] [Indexed: 11/08/2024]
14
Wang L, Trasanidis N, Wu T, Dong G, Hu M, Bauer DE, Pinello L. Dictys: dynamic gene regulatory network dissects developmental continuum with single-cell multiomics. Nat Methods 2023;20:1368-1378. [PMID: 37537351 DOI: 10.1038/s41592-023-01971-3] [Citation(s) in RCA: 32] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2022] [Accepted: 07/05/2023] [Indexed: 08/05/2023]
15
Xue L, Wu Y, Lin Y. Dissecting and improving gene regulatory network inference using single-cell transcriptome data. Genome Res 2023;33:1609-1621. [PMID: 37580132 PMCID: PMC10620053 DOI: 10.1101/gr.277488.122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Accepted: 08/07/2023] [Indexed: 08/16/2023]
16
Liu H, Zhang X. Frequentist model averaging for undirected Gaussian graphical models. Biometrics 2023;79:2050-2062. [PMID: 36106680 DOI: 10.1111/biom.13758] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Revised: 07/12/2022] [Accepted: 08/30/2022] [Indexed: 11/30/2022]
17
Ma Y, Shen J, Zhao Z, Liang H, Tan Y, Liu Z, Qian K, Yang M, Hu B. What Can Facial Movements Reveal? Depression Recognition and Analysis Based on Optical Flow Using Bayesian Networks. IEEE Trans Neural Syst Rehabil Eng 2023;31:3459-3468. [PMID: 37581961 DOI: 10.1109/tnsre.2023.3305351] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/17/2023]
18
Zhang J, Hu C, Zhang Q. Gene regulatory network inference based on a nonhomogeneous dynamic Bayesian network model with an improved Markov Monte Carlo sampling. BMC Bioinformatics 2023;24:264. [PMID: 37355560 DOI: 10.1186/s12859-023-05381-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2023] [Accepted: 06/07/2023] [Indexed: 06/26/2023]  Open
19
Federico A, Kern J, Varelas X, Monti S. Structure Learning for Gene Regulatory Networks. PLoS Comput Biol 2023;19:e1011118. [PMID: 37200395 DOI: 10.1371/journal.pcbi.1011118] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2022] [Revised: 05/31/2023] [Accepted: 04/20/2023] [Indexed: 05/20/2023]  Open
20
Cho C, Lee D, Jeong D, Kim S, Kim MK, Srinivasan S. Characterization of radiation-resistance mechanism in Spirosoma montaniterrae DY10T in terms of transcriptional regulatory system. Sci Rep 2023;13:4739. [PMID: 36959250 PMCID: PMC10036542 DOI: 10.1038/s41598-023-31509-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2023] [Accepted: 03/13/2023] [Indexed: 03/25/2023]  Open
21
Decoding transcriptional regulation via a human gene expression predictor. J Genet Genomics 2023;50:305-317. [PMID: 36693565 DOI: 10.1016/j.jgg.2023.01.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Revised: 01/04/2023] [Accepted: 01/10/2023] [Indexed: 01/22/2023]
22
Shi T, Yu H, Blair RH. Integrated regulatory and metabolic networks of the tumor microenvironment for therapeutic target prioritization. Stat Appl Genet Mol Biol 2023;22:sagmb-2022-0054. [PMID: 37988745 DOI: 10.1515/sagmb-2022-0054] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2022] [Accepted: 09/28/2023] [Indexed: 11/23/2023]
23
Agamah FE, Bayjanov JR, Niehues A, Njoku KF, Skelton M, Mazandu GK, Ederveen THA, Mulder N, Chimusa ER, 't Hoen PAC. Computational approaches for network-based integrative multi-omics analysis. Front Mol Biosci 2022;9:967205. [PMID: 36452456 PMCID: PMC9703081 DOI: 10.3389/fmolb.2022.967205] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2022] [Accepted: 10/20/2022] [Indexed: 08/27/2023]  Open
24
Biswas R, Shlizerman E. Statistical perspective on functional and causal neural connectomics: The Time-Aware PC algorithm. PLoS Comput Biol 2022;18:e1010653. [PMID: 36374908 PMCID: PMC9704761 DOI: 10.1371/journal.pcbi.1010653] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2022] [Revised: 11/28/2022] [Accepted: 10/12/2022] [Indexed: 11/16/2022]  Open
25
Zenere A, Larsson EG, Altafini C. Relating balance and conditional independence in graphical models. Phys Rev E 2022;106:044309. [PMID: 36397601 DOI: 10.1103/physreve.106.044309] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Accepted: 09/13/2022] [Indexed: 06/16/2023]
26
Jia M, Yuan DY, Lovelace TC, Hu M, Benos PV. Causal Discovery in High-dimensional, Multicollinear Datasets. FRONTIERS IN EPIDEMIOLOGY 2022;2:899655. [PMID: 36778756 PMCID: PMC9910507 DOI: 10.3389/fepid.2022.899655] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/19/2022] [Accepted: 08/05/2022] [Indexed: 11/13/2022]
27
Information theory: A foundation for complexity science. Proc Natl Acad Sci U S A 2022;119:e2119089119. [PMID: 35895715 PMCID: PMC9388134 DOI: 10.1073/pnas.2119089119] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]  Open
28
Suter P, Kuipers J, Beerenwinkel N. Discovering gene regulatory networks of multiple phenotypic groups using dynamic Bayesian networks. Brief Bioinform 2022;23:bbac219. [PMID: 35679575 PMCID: PMC9294428 DOI: 10.1093/bib/bbac219] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2021] [Revised: 04/29/2022] [Accepted: 05/10/2022] [Indexed: 11/13/2022]  Open
29
Sharma M, Jha IP, Chawla S, Pandey N, Chandra O, Mishra S, Kumar V. Associating pathways with diseases using single-cell expression profiles and making inferences about potential drugs. Brief Bioinform 2022;23:6623725. [PMID: 35772850 DOI: 10.1093/bib/bbac241] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Revised: 05/22/2022] [Accepted: 05/23/2022] [Indexed: 11/14/2022]  Open
30
Videla Rodriguez EA, Pértille F, Guerrero-Bosagna C, Mitchell JBO, Jensen P, Smith VA. Practical application of a Bayesian network approach to poultry epigenetics and stress. BMC Bioinformatics 2022;23:261. [PMID: 35778683 PMCID: PMC9250184 DOI: 10.1186/s12859-022-04800-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2022] [Accepted: 06/14/2022] [Indexed: 11/23/2022]  Open
31
Thermodynamic Modelling of Transcriptional Control: A Sensitivity Analysis. MATHEMATICS 2022. [DOI: 10.3390/math10132169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
32
Ngampruetikorn V, Sachdeva V, Torrence J, Humplik J, Schwab DJ, Palmer SE. Inferring couplings in networks across order-disorder phase transitions. PHYSICAL REVIEW RESEARCH 2022;4:023240. [PMID: 37576946 PMCID: PMC10421637 DOI: 10.1103/physrevresearch.4.023240] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 08/15/2023]
33
Data-driven learning how oncogenic gene expression locally alters heterocellular networks. Nat Commun 2022;13:1986. [PMID: 35418177 PMCID: PMC9007999 DOI: 10.1038/s41467-022-29636-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2021] [Accepted: 03/22/2022] [Indexed: 11/21/2022]  Open
34
Chen L, Wan H, He Q, He S, Deng M. Statistical Methods for Microbiome Compositional Data Network Inference: A Survey. J Comput Biol 2022;29:704-723. [PMID: 35404093 DOI: 10.1089/cmb.2021.0406] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]  Open
35
Topology Adaptive Graph Estimation in High Dimensions. MATHEMATICS 2022. [DOI: 10.3390/math10081244] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
36
Nardos R, Leung ET, Dahl EM, Davin S, Asquith M, Gregory WT, Karstens L. Network-Based Differences in the Vaginal and Bladder Microbial Communities Between Women With and Without Urgency Urinary Incontinence. Front Cell Infect Microbiol 2022;12:759156. [PMID: 35402312 PMCID: PMC8988226 DOI: 10.3389/fcimb.2022.759156] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2021] [Accepted: 02/17/2022] [Indexed: 12/12/2022]  Open
37
Biswas R, Shlizerman E. Statistical Perspective on Functional and Causal Neural Connectomics: A Comparative Study. Front Syst Neurosci 2022;16:817962. [PMID: 35308566 PMCID: PMC8924489 DOI: 10.3389/fnsys.2022.817962] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2021] [Accepted: 01/19/2022] [Indexed: 11/13/2022]  Open
38
Zenere A, Rundquist O, Gustafsson M, Altafini C. Multi-omics protein-coding units as massively parallel Bayesian networks: empirical validation of causality structure. iScience 2022;25:104048. [PMID: 35355520 PMCID: PMC8958332 DOI: 10.1016/j.isci.2022.104048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2021] [Revised: 01/17/2022] [Accepted: 03/08/2022] [Indexed: 11/29/2022]  Open
39
Castelletti F, Peluso S. Network structure learning under uncertain interventions. J Am Stat Assoc 2022. [DOI: 10.1080/01621459.2022.2037430] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
40
Zheng L, Liu Z, Yang Y, Shen HB. Accurate inference of gene regulatory interactions from spatial gene expression with deep contrastive learning. Bioinformatics 2022;38:746-753. [PMID: 34664632 DOI: 10.1093/bioinformatics/btab718] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2021] [Revised: 09/19/2021] [Accepted: 10/15/2021] [Indexed: 02/03/2023]  Open
41
Zhang S, Knaack S, Roy S. Enabling Studies of Genome-Scale Regulatory Network Evolution in Large Phylogenies with MRTLE. Methods Mol Biol 2022;2477:439-455. [PMID: 35524131 PMCID: PMC9794031 DOI: 10.1007/978-1-0716-2257-5_24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
42
Kuipers J, Suter P, Moffa G. Efficient Sampling and Structure Learning of Bayesian Networks. J Comput Graph Stat 2021. [DOI: 10.1080/10618600.2021.2020127] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
43
Rocca A, Kholodenko BN. Can Systems Biology Advance Clinical Precision Oncology? Cancers (Basel) 2021;13:6312. [PMID: 34944932 PMCID: PMC8699328 DOI: 10.3390/cancers13246312] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2021] [Accepted: 12/10/2021] [Indexed: 12/13/2022]  Open
44
Castelletti F, Mascaro A. Structural learning and estimation of joint causal effects among network-dependent variables. STAT METHOD APPL-GER 2021. [DOI: 10.1007/s10260-021-00579-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
45
Castelletti F, Peluso S. Equivalence class selection of categorical graphical models. Comput Stat Data Anal 2021. [DOI: 10.1016/j.csda.2021.107304] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
46
Moingeon P, Kuenemann M, Guedj M. Artificial intelligence-enhanced drug design and development: Toward a computational precision medicine. Drug Discov Today 2021;27:215-222. [PMID: 34555509 DOI: 10.1016/j.drudis.2021.09.006] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2021] [Revised: 07/13/2021] [Accepted: 09/14/2021] [Indexed: 12/29/2022]
47
Han SW, Park S, Zhong H, Ryu ES, Wang P, Jung S, Lim J, Yoon J, Kim S. Estimation of joint directed acyclic graphs with lasso family for gene networks. COMMUN STAT-SIMUL C 2021. [DOI: 10.1080/03610918.2019.1618869] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Leahy BD, Racowsky C, Needleman D. Inferring simple but precise quantitative models of human oocyte and early embryo development. J R Soc Interface 2021;18:20210475. [PMID: 34493094 PMCID: PMC8424348 DOI: 10.1098/rsif.2021.0475] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2021] [Accepted: 08/16/2021] [Indexed: 11/12/2022]  Open
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Li CZ, Kawaguchi ES, Li G. A New 0-Regularized Log-Linear Poisson Graphical Model with Applications to RNA Sequencing Data. J Comput Biol 2021;28:880-891. [PMID: 34375132 PMCID: PMC8558075 DOI: 10.1089/cmb.2020.0558] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]  Open
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Jin G, Song Q. Flexible brain: a domain-model based bayesian network for classification. J EXP THEOR ARTIF IN 2021. [DOI: 10.1080/0952813x.2021.1949753] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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