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For: Henkel R, Hoehndorf R, Kacprowski T, Knüpfer C, Liebermeister W, Waltemath D. Notions of similarity for systems biology models. Brief Bioinform 2018;19:77-88. [PMID: 27742665 PMCID: PMC5862271 DOI: 10.1093/bib/bbw090] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2016] [Revised: 08/28/2016] [Indexed: 01/23/2023]  Open
Number Cited by Other Article(s)
1
A group theoretic approach to model comparison with simplicial representations. J Math Biol 2022;85:48. [PMID: 36209430 PMCID: PMC9548478 DOI: 10.1007/s00285-022-01807-2] [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: 11/12/2021] [Revised: 05/31/2022] [Accepted: 07/25/2022] [Indexed: 10/28/2022]
2
Smirnov P, Smith I, Safikhani Z, Ba-Alawi W, Khodakarami F, Lin E, Yu Y, Martin S, Ortmann J, Aittokallio T, Hafner M, Haibe-Kains B. Evaluation of statistical approaches for association testing in noisy drug screening data. BMC Bioinformatics 2022;23:188. [PMID: 35585485 PMCID: PMC9118710 DOI: 10.1186/s12859-022-04693-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2021] [Accepted: 04/15/2022] [Indexed: 11/10/2022]  Open
3
Vittadello ST, Stumpf MPH. Model comparison via simplicial complexes and persistent homology. ROYAL SOCIETY OPEN SCIENCE 2021;8:211361. [PMID: 34659787 PMCID: PMC8511761 DOI: 10.1098/rsos.211361] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Accepted: 09/16/2021] [Indexed: 05/21/2023]
4
Guo L, Rong L, Xu X. The changes of triacylglycerol and inflammatory factors during dialysis treatment of hypertriglyceridemia during pregnancy and analysis of nursing countermeasure. Am J Transl Res 2021;13:6745-6751. [PMID: 34306421 PMCID: PMC8290644] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2020] [Accepted: 02/09/2021] [Indexed: 06/13/2023]
5
Dixit VA, Singh P. A property-response perspective on modern toxicity assessment and drug toxicity index (DTI). In Silico Pharmacol 2021;9:37. [PMID: 34017677 PMCID: PMC8124026 DOI: 10.1007/s40203-021-00096-9] [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: 02/04/2021] [Accepted: 05/05/2021] [Indexed: 11/26/2022]  Open
6
Neal ML, König M, Nickerson D, Mısırlı G, Kalbasi R, Dräger A, Atalag K, Chelliah V, Cooling MT, Cook DL, Crook S, de Alba M, Friedman SH, Garny A, Gennari JH, Gleeson P, Golebiewski M, Hucka M, Juty N, Myers C, Olivier BG, Sauro HM, Scharm M, Snoep JL, Touré V, Wipat A, Wolkenhauer O, Waltemath D. Harmonizing semantic annotations for computational models in biology. Brief Bioinform 2019;20:540-550. [PMID: 30462164 PMCID: PMC6433895 DOI: 10.1093/bib/bby087] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Revised: 08/08/2018] [Accepted: 08/17/2018] [Indexed: 02/06/2023]  Open
7
Henze R, Mu C, Puljiz M, Kamaleson N, Huwald J, Haslegrave J, di Fenizio PS, Parker D, Good C, Rowe JE, Ibrahim B, Dittrich P. Multi-scale stochastic organization-oriented coarse-graining exemplified on the human mitotic checkpoint. Sci Rep 2019;9:3902. [PMID: 30846816 PMCID: PMC6405958 DOI: 10.1038/s41598-019-40648-w] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2018] [Accepted: 02/19/2019] [Indexed: 02/05/2023]  Open
8
Scharm M, Gebhardt T, Touré V, Bagnacani A, Salehzadeh-Yazdi A, Wolkenhauer O, Waltemath D. Evolution of computational models in BioModels Database and the Physiome Model Repository. BMC SYSTEMS BIOLOGY 2018;12:53. [PMID: 29650016 PMCID: PMC5898004 DOI: 10.1186/s12918-018-0553-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/13/2017] [Accepted: 02/21/2018] [Indexed: 11/25/2022]
9
Lambusch F, Waltemath D, Wolkenhauer O, Sandkuhl K, Rosenke C, Henkel R. Identifying frequent patterns in biochemical reaction networks: a workflow. Database (Oxford) 2018;2018:5048438. [PMID: 29992320 PMCID: PMC6030809 DOI: 10.1093/database/bay051] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2017] [Revised: 04/27/2018] [Accepted: 04/29/2018] [Indexed: 11/15/2022]
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