• Reference Citation Analysis
  • v
  • v
  • Find an Article
Find an Article PDF (5081234)   Today's Articles (1160)
For: Loew LM, Schaff JC. The Virtual Cell: a software environment for computational cell biology. Trends Biotechnol 2001;19:401-6. [PMID: 11587765 DOI: 10.1016/s0167-7799(01)01740-1] [Citation(s) in RCA: 202] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Number Cited by Other Article(s)
51
Shahinuzzaman MD, Barua D. A Multiscale Algorithm for Spatiotemporal Modeling of Multivalent Protein-Protein Interaction. J Comput Biol 2017;24:1275-1283. [PMID: 29099235 DOI: 10.1089/cmb.2017.0178] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
52
Oliveira CM, Jesus CDF, Ceneviva LVS, Silva FH, Cruz AJG, Costa CBB, Badino AC. AnaBioPlus: a new package for parameter estimation and simulation of bioprocesses. BRAZILIAN JOURNAL OF CHEMICAL ENGINEERING 2017. [DOI: 10.1590/0104-6632.20170344s20150673] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
53
Modeling and simulation of biological systems using SPICE language. PLoS One 2017;12:e0182385. [PMID: 28787027 PMCID: PMC5546598 DOI: 10.1371/journal.pone.0182385] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2017] [Accepted: 07/17/2017] [Indexed: 11/19/2022]  Open
54
Vasilevich AS, Carlier A, de Boer J, Singh S. How Not To Drown in Data: A Guide for Biomaterial Engineers. Trends Biotechnol 2017;35:743-755. [PMID: 28693857 DOI: 10.1016/j.tibtech.2017.05.007] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2017] [Revised: 05/27/2017] [Accepted: 05/30/2017] [Indexed: 01/20/2023]
55
Wittek A, Dreyer I, Al-Rasheid KAS, Sauer N, Hedrich R, Geiger D. The fungal UmSrt1 and maize ZmSUT1 sucrose transporters battle for plant sugar resources. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2017;59:422-435. [PMID: 28296205 DOI: 10.1111/jipb.12535] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2017] [Accepted: 03/10/2017] [Indexed: 06/06/2023]
56
Dreyer I. Plant potassium channels are in general dual affinity uptake systems. AIMS BIOPHYSICS 2017. [DOI: 10.3934/biophy.2017.1.90] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
57
Schaff JC, Gao F, Li Y, Novak IL, Slepchenko BM. Numerical Approach to Spatial Deterministic-Stochastic Models Arising in Cell Biology. PLoS Comput Biol 2016;12:e1005236. [PMID: 27959915 PMCID: PMC5154471 DOI: 10.1371/journal.pcbi.1005236] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2016] [Accepted: 11/03/2016] [Indexed: 01/01/2023]  Open
58
Kovacheva VN, Rajpoot NM. Subcellular protein expression models for microsatellite instability in colorectal adenocarcinoma tissue images. BMC Bioinformatics 2016;17:430. [PMID: 27770786 PMCID: PMC5075203 DOI: 10.1186/s12859-016-1243-y] [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: 04/07/2016] [Accepted: 09/08/2016] [Indexed: 11/12/2022]  Open
59
McDougal RA, Bulanova AS, Lytton WW. Reproducibility in Computational Neuroscience Models and Simulations. IEEE Trans Biomed Eng 2016;63:2021-35. [PMID: 27046845 PMCID: PMC5016202 DOI: 10.1109/tbme.2016.2539602] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
60
Ibrahim B. In silico spatial simulations reveal that MCC formation and excess BubR1 are required for tight inhibition of the anaphase-promoting complex. MOLECULAR BIOSYSTEMS 2016;11:2867-77. [PMID: 26256776 DOI: 10.1039/c5mb00395d] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
61
Li Y, Majarian TD, Naik AW, Johnson GR, Murphy RF. Point process models for localization and interdependence of punctate cellular structures. Cytometry A 2016;89:633-43. [PMID: 27327612 DOI: 10.1002/cyto.a.22873] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2016] [Revised: 03/09/2016] [Accepted: 04/29/2016] [Indexed: 11/08/2022]
62
Schaff JC, Vasilescu D, Moraru II, Loew LM, Blinov ML. Rule-based modeling with Virtual Cell. Bioinformatics 2016;32:2880-2. [PMID: 27497444 DOI: 10.1093/bioinformatics/btw353] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2016] [Accepted: 05/30/2016] [Indexed: 01/09/2023]  Open
63
Sayyid F, Kalvala S. On the importance of modelling the internal spatial dynamics of biological cells. Biosystems 2016;145:53-66. [PMID: 27262415 DOI: 10.1016/j.biosystems.2016.05.012] [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: 07/15/2015] [Revised: 05/25/2016] [Accepted: 05/31/2016] [Indexed: 11/16/2022]
64
Sahrawat TR, Chatterjee D. Time-Dependent Model to Mimic Acetylcholine Induced Vasodilatation in Arterial Smooth Muscle Cells. INTERNATIONAL LETTERS OF NATURAL SCIENCES 2016. [DOI: 10.56431/p-30vuj6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
65
Murphy RF. Building cell models and simulations from microscope images. Methods 2016;96:33-39. [PMID: 26484733 PMCID: PMC4766043 DOI: 10.1016/j.ymeth.2015.10.011] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2015] [Revised: 10/15/2015] [Accepted: 10/16/2015] [Indexed: 01/13/2023]  Open
66
Sahrawat TR, Chatterjee D. Time-Dependent Model to Mimic Acetylcholine Induced Vasodilatation in Arterial Smooth Muscle Cells. INTERNATIONAL LETTERS OF NATURAL SCIENCES 2016. [DOI: 10.18052/www.scipress.com/ilns.52.60] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
67
Schott S, Valdebenito B, Bustos D, Gomez-Porras JL, Sharma T, Dreyer I. Cooperation through Competition-Dynamics and Microeconomics of a Minimal Nutrient Trade System in Arbuscular Mycorrhizal Symbiosis. FRONTIERS IN PLANT SCIENCE 2016;7:912. [PMID: 27446142 PMCID: PMC4921476 DOI: 10.3389/fpls.2016.00912] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2016] [Accepted: 06/09/2016] [Indexed: 05/17/2023]
68
Costa RS, Hartmann A, Vinga S. Kinetic modeling of cell metabolism for microbial production. J Biotechnol 2015;219:126-41. [PMID: 26724578 DOI: 10.1016/j.jbiotec.2015.12.023] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2015] [Revised: 11/25/2015] [Accepted: 12/15/2015] [Indexed: 12/20/2022]
69
Esmaeili A, Davison T, Wu A, Alcantara J, Jacob C. PROKARYO: an illustrative and interactive computational model of the lactose operon in the bacterium Escherichia coli. BMC Bioinformatics 2015;16:311. [PMID: 26415599 PMCID: PMC4587781 DOI: 10.1186/s12859-015-0720-z] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2015] [Accepted: 08/24/2015] [Indexed: 01/10/2023]  Open
70
Mohsenizadeh DN, Hua J, Bittner M, Dougherty ER. Dynamical modeling of uncertain interaction-based genomic networks. BMC Bioinformatics 2015;16 Suppl 13:S3. [PMID: 26423606 PMCID: PMC4596957 DOI: 10.1186/1471-2105-16-s13-s3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]  Open
71
Mei Y, Abedi V, Carbo A, Zhang X, Lu P, Philipson C, Hontecillas R, Hoops S, Liles N, Bassaganya-Riera J. Multiscale modeling of mucosal immune responses. BMC Bioinformatics 2015;16 Suppl 12:S2. [PMID: 26329787 PMCID: PMC4705510 DOI: 10.1186/1471-2105-16-s12-s2] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
72
Pavlopoulos GA, Malliarakis D, Papanikolaou N, Theodosiou T, Enright AJ, Iliopoulos I. Visualizing genome and systems biology: technologies, tools, implementation techniques and trends, past, present and future. Gigascience 2015;4:38. [PMID: 26309733 PMCID: PMC4548842 DOI: 10.1186/s13742-015-0077-2] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2015] [Accepted: 08/03/2015] [Indexed: 01/31/2023]  Open
73
Wu F, van Schie BG, Keymer JE, Dekker C. Symmetry and scale orient Min protein patterns in shaped bacterial sculptures. NATURE NANOTECHNOLOGY 2015;10:719-26. [PMID: 26098227 PMCID: PMC4966624 DOI: 10.1038/nnano.2015.126] [Citation(s) in RCA: 64] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2014] [Accepted: 05/19/2015] [Indexed: 05/21/2023]
74
Ibrahim B. Spindle assembly checkpoint is sufficient for complete Cdc20 sequestering in mitotic control. Comput Struct Biotechnol J 2015;13:320-8. [PMID: 25977749 PMCID: PMC4430708 DOI: 10.1016/j.csbj.2015.03.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2015] [Revised: 03/26/2015] [Accepted: 03/31/2015] [Indexed: 11/05/2022]  Open
75
Holmes WR, Mata MA, Edelstein-Keshet L. Local perturbation analysis: a computational tool for biophysical reaction-diffusion models. Biophys J 2015;108:230-6. [PMID: 25606671 PMCID: PMC4302203 DOI: 10.1016/j.bpj.2014.11.3457] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2014] [Revised: 10/21/2014] [Accepted: 11/06/2014] [Indexed: 12/27/2022]  Open
76
Bergmann FT, Adams R, Moodie S, Cooper J, Glont M, Golebiewski M, Hucka M, Laibe C, Miller AK, Nickerson DP, Olivier BG, Rodriguez N, Sauro HM, Scharm M, Soiland-Reyes S, Waltemath D, Yvon F, Le Novère N. COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project. BMC Bioinformatics 2014;15:369. [PMID: 25494900 PMCID: PMC4272562 DOI: 10.1186/s12859-014-0369-z] [Citation(s) in RCA: 92] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2014] [Accepted: 10/30/2014] [Indexed: 12/20/2022]  Open
77
Lewis DD, Villarreal FD, Wu F, Tan C. Synthetic biology outside the cell: linking computational tools to cell-free systems. Front Bioeng Biotechnol 2014;2:66. [PMID: 25538941 PMCID: PMC4260521 DOI: 10.3389/fbioe.2014.00066] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2014] [Accepted: 11/23/2014] [Indexed: 12/22/2022]  Open
78
Structural basis of thymosin-β4/profilin exchange leading to actin filament polymerization. Proc Natl Acad Sci U S A 2014;111:E4596-605. [PMID: 25313062 PMCID: PMC4217450 DOI: 10.1073/pnas.1412271111] [Citation(s) in RCA: 63] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]  Open
79
Ibrahim B, Henze R. Active transport can greatly enhance Cdc20:Mad2 formation. Int J Mol Sci 2014;15:19074-91. [PMID: 25338047 PMCID: PMC4227261 DOI: 10.3390/ijms151019074] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2014] [Revised: 09/30/2014] [Accepted: 10/11/2014] [Indexed: 12/12/2022]  Open
80
Kang S, Kahan S, McDermott J, Flann N, Shmulevich I. Biocellion: accelerating computer simulation of multicellular biological system models. Bioinformatics 2014;30:3101-8. [PMID: 25064572 DOI: 10.1093/bioinformatics/btu498] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]  Open
81
Sheth BP, Thaker VS. Plant systems biology: insights, advances and challenges. PLANTA 2014;240:33-54. [PMID: 24671625 DOI: 10.1007/s00425-014-2059-5] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/23/2013] [Accepted: 03/06/2014] [Indexed: 05/20/2023]
82
Javaheri N, Dries R, Kaandorp J. Understanding the sub-cellular dynamics of silicon transportation and synthesis in diatoms using population-level data and computational optimization. PLoS Comput Biol 2014;10:e1003687. [PMID: 24945622 PMCID: PMC4063665 DOI: 10.1371/journal.pcbi.1003687] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2013] [Accepted: 05/09/2014] [Indexed: 01/10/2023]  Open
83
Blatt MR, Wang Y, Leonhardt N, Hills A. Exploring emergent properties in cellular homeostasis using OnGuard to model K+ and other ion transport in guard cells. JOURNAL OF PLANT PHYSIOLOGY 2014;171:770-8. [PMID: 24268743 PMCID: PMC4030602 DOI: 10.1016/j.jplph.2013.09.014] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2013] [Revised: 09/02/2013] [Accepted: 09/03/2013] [Indexed: 05/17/2023]
84
Česka M, Šafránek D, Dražan S, Brim L. Robustness analysis of stochastic biochemical systems. PLoS One 2014;9:e94553. [PMID: 24751941 PMCID: PMC3994026 DOI: 10.1371/journal.pone.0094553] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2013] [Accepted: 03/18/2014] [Indexed: 11/18/2022]  Open
85
Waltemath D, Bergmann FT, Chaouiya C, Czauderna T, Gleeson P, Goble C, Golebiewski M, Hucka M, Juty N, Krebs O, Le Novère N, Mi H, Moraru II, Myers CJ, Nickerson D, Olivier BG, Rodriguez N, Schreiber F, Smith L, Zhang F, Bonnet E. Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE). Stand Genomic Sci 2014. [PMCID: PMC4149000 DOI: 10.4056/sigs.5279417] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]  Open
86
Interpretation of Cellular Imaging and AQP4 Quantification Data in a Single Cell Simulator. Processes (Basel) 2014. [DOI: 10.3390/pr2010218] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]  Open
87
Calçada D, Vianello D, Giampieri E, Sala C, Castellani G, de Graaf A, Kremer B, van Ommen B, Feskens E, Santoro A, Franceschi C, Bouwman J. The role of low-grade inflammation and metabolic flexibility in aging and nutritional modulation thereof: a systems biology approach. Mech Ageing Dev 2014;136-137:138-47. [PMID: 24462698 DOI: 10.1016/j.mad.2014.01.004] [Citation(s) in RCA: 74] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2013] [Revised: 01/10/2014] [Accepted: 01/13/2014] [Indexed: 02/07/2023]
88
ASAI Y, ABE T, OKA H, OKITA M, HAGIHARA KI, GHOSH S, MATSUOKA Y, KURACHI Y, NOMURA T, KITANO H. A Versatile Platform for Multilevel Modeling of Physiological Systems: SBML-PHML Hybrid Modeling and Simulation. ADVANCED BIOMEDICAL ENGINEERING 2014. [DOI: 10.14326/abe.3.50] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]  Open
89
Rangamani P, Lipshtat A, Azeloglu EU, Calizo RC, Hu M, Ghassemi S, Hone J, Scarlata S, Neves SR, Iyengar R. Decoding information in cell shape. Cell 2013;154:1356-69. [PMID: 24034255 DOI: 10.1016/j.cell.2013.08.026] [Citation(s) in RCA: 124] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2013] [Revised: 05/30/2013] [Accepted: 08/14/2013] [Indexed: 12/28/2022]
90
McDougal RA, Hines ML, Lytton WW. Reaction-diffusion in the NEURON simulator. Front Neuroinform 2013;7:28. [PMID: 24298253 PMCID: PMC3828620 DOI: 10.3389/fninf.2013.00028] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2013] [Accepted: 10/25/2013] [Indexed: 12/29/2022]  Open
91
Jeannin-Girardon A, Ballet P, Rodin V. A software architecture for multi-cellular system simulations on graphics processing units. Acta Biotheor 2013;61:317-27. [PMID: 23900760 DOI: 10.1007/s10441-013-9187-3] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2012] [Accepted: 07/19/2013] [Indexed: 12/01/2022]
92
Simulation of E. coli gene regulation including overlapping cell cycles, growth, division, time delays and noise. PLoS One 2013;8:e62380. [PMID: 23638057 PMCID: PMC3637171 DOI: 10.1371/journal.pone.0062380] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2012] [Accepted: 03/22/2013] [Indexed: 11/19/2022]  Open
93
Secrier M, Schneider R. Visualizing time-related data in biology, a review. Brief Bioinform 2013;15:771-82. [PMID: 23585583 PMCID: PMC4171679 DOI: 10.1093/bib/bbt021] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]  Open
94
Holmes WR, Edelstein-Keshet L. A comparison of computational models for eukaryotic cell shape and motility. PLoS Comput Biol 2012;8:e1002793. [PMID: 23300403 PMCID: PMC3531321 DOI: 10.1371/journal.pcbi.1002793] [Citation(s) in RCA: 61] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]  Open
95
Evaluation of a genome-scale in silico metabolic model for Geobacter metallireducens by using proteomic data from a field biostimulation experiment. Appl Environ Microbiol 2012;78:8735-42. [PMID: 23042184 DOI: 10.1128/aem.01795-12] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
96
Kent E, Hoops S, Mendes P. Condor-COPASI: high-throughput computing for biochemical networks. BMC SYSTEMS BIOLOGY 2012;6:91. [PMID: 22834945 PMCID: PMC3527284 DOI: 10.1186/1752-0509-6-91] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/10/2012] [Accepted: 07/12/2012] [Indexed: 12/19/2022]
97
Hills A, Chen ZH, Amtmann A, Blatt MR, Lew VL. OnGuard, a computational platform for quantitative kinetic modeling of guard cell physiology. PLANT PHYSIOLOGY 2012;159:1026-42. [PMID: 22635116 PMCID: PMC3387691 DOI: 10.1104/pp.112.197244] [Citation(s) in RCA: 138] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2012] [Accepted: 05/20/2012] [Indexed: 05/17/2023]
98
Brown SA, Loew LM. Computational analysis of calcium signaling and membrane electrophysiology in cerebellar Purkinje neurons associated with ataxia. BMC SYSTEMS BIOLOGY 2012;6:70. [PMID: 22703638 PMCID: PMC3468360 DOI: 10.1186/1752-0509-6-70] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/11/2012] [Accepted: 05/16/2012] [Indexed: 11/10/2022]
99
Wenderski WC, Neves SR. Modeling of spatial intracellular signaling events in neurons. Methods Enzymol 2012;505:105-24. [PMID: 22289450 DOI: 10.1016/b978-0-12-388448-0.00014-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
100
Marchisio MA. In silico implementation of synthetic gene networks. Methods Mol Biol 2012;813:3-21. [PMID: 22083733 DOI: 10.1007/978-1-61779-412-4_1] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
PrevPage 2 of 5 12345Next
© 2004-2025 Baishideng Publishing Group Inc. All rights reserved. 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA