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Molecular Based Mathematical Biology

Short Title: Mol. Based Math. Biol.
Publisher: De Gruyter (Sciendo), Warsaw
ISSN: 2299-3266/e
Online: https://www.degruyter.com/view/j/cmb
Successor: Computational and Mathematical Biophysics
Comments: Journal; No longer indexed; Published electronic only as of Vol. 1 (2013). This journal is available open access.
Documents Indexed: 37 Publications (2013–2017)
References Indexed: 37 Publications with 2,100 References.

Latest Issues

5 (2017)
4 (2016)
3 (2015)
2 (2014)
1 (2013)
all top 5

Authors

3 Bardhan, Jaydeep P.
3 Eisenberg, Bob
3 Xie, Dexuan
2 Chen, Chaoping
2 Chen, Duan
2 Geng, Weihua
2 Jiang, Yi
2 Knepley, Matthew G.
2 Liu, Jiangguo
2 Liu, Jinn-Liang
2 Sadre-Marandi, Farrah
2 Tavener, Simon J.
2 Wei, Guowei
2 Ying, Jinyong
1 Acheampong, Daniel
1 Alexov, Emil
1 Blatt, Simon
1 Brune, Peter R.
1 Cang, Zixuan
1 Chen, Minxin
1 Chen, Zhan
1 Cheng, Jie
1 Cheng, Yuhui
1 Fenley, Marcia O.
1 Ferry, David K.
1 Flapan, Erica
1 Harris, Robert C.
1 Heller, Gabriella
1 Holst, Michael J.
1 Horng, Tzyy-Leng
1 Hu, Langhua
1 Huang, Fenix W. D.
1 Jerome, Joseph W.
1 Jing, Zhucui
1 Kauffman, Louis Hirsch
1 Kekenes-Huskey, Peter M.
1 Kerner, Richard
1 Kreienkamp, Amelia B.
1 Kurnikova, Maria G.
1 Lei, Xue
1 Li, Chuan
1 Li, Lin
1 Li, Ming
1 Liang, Jie
1 Liao, Tao
1 Lin, Taichia
1 Liu, Chun
1 Liu, Lucy Y.
1 Liu, Weishi
1 Lu, Benzhuo
1 Mackoy, Travis
1 Majd, Sheereen
1 Manganini, Fabio
1 McCammon, J. Andrew
1 McCulloch, Andrew D.
1 Michailova, Anushka
1 Minkara, Mona S.
1 Mitchell, Julie C.
1 Mu, Lin
1 Opron, Kristopher
1 Oriols, Xavier
1 Petukh, Marharyta
1 Phillips, George N. jun.
1 Radhakrishnan, Mala L.
1 Reidys, Christian Michael
1 Reiter, Philipp
1 Ren, Baihua
1 Rezazadegan, Reza
1 Ryham, Rolf J.
1 Sacco, Riccardo
1 Scholtes, Sebastian
1 Simakov, Nikolay A.
1 Sit, Atilla
1 Swager, M. R.
1 Tian, Wei
1 Tsai, Ping-Hsuan
1 Wang, Xia
1 Wright, Stephen J.
1 Wu, Kedi
1 Xia, Kelin
1 Xie, Yan
1 Xie, Yang
1 Xu, Guoliang
1 Xu, Shixin
1 Yu, Jin
1 Yu, Zeyun
1 Yue, Xingye
1 Zhang, Jianbao
1 Zhang, Linbo
1 Zhang, Mingji
1 Zhang, Yongjie Jessica
1 Zhao, Shan
all top 5

Fields

30 Biology and other natural sciences (92-XX)
9 Numerical analysis (65-XX)
7 Partial differential equations (35-XX)
5 Manifolds and cell complexes (57-XX)
5 Quantum theory (81-XX)
4 Differential geometry (53-XX)
2 Combinatorics (05-XX)
2 Computer science (68-XX)
2 Fluid mechanics (76-XX)
2 Optics, electromagnetic theory (78-XX)
2 Statistical mechanics, structure of matter (82-XX)
1 General and overarching topics; collections (00-XX)
1 Ordinary differential equations (34-XX)
1 Harmonic analysis on Euclidean spaces (42-XX)
1 Integral transforms, operational calculus (44-XX)
1 Calculus of variations and optimal control; optimization (49-XX)
1 Convex and discrete geometry (52-XX)
1 Mechanics of particles and systems (70-XX)
1 Classical thermodynamics, heat transfer (80-XX)
1 Operations research, mathematical programming (90-XX)

Publications by Year

all cited Publications top 5 cited Publications

Citations contained in zbMATH Open

23 Publications have been cited 106 times in 93 Documents Cited by ▼ Year ▼
A topological approach for protein classification. Zbl 1347.92054
Cang, Zixuan; Mu, Lin; Wu, Kedi; Opron, Kristopher; Xia, Kelin; Wei, Guo-Wei
14
2015
Modeling and simulating asymmetrical conductance changes in gramicidin pores. Zbl 1323.92090
Xu, Shixin; Chen, Minxin; Majd, Sheereen; Yue, Xingye; Liu, Chun
12
2014
Fully implicit ADI schemes for solving the nonlinear Poisson-Boltzmann equation. Zbl 1276.65063
Geng, Weihua; Zhao, Shan
11
2013
Parallel adaptive finite element algorithms for solving the coupled electro-diffusion equations. Zbl 1276.35143
Xie, Yan; Cheng, Jie; Lu, Benzhuo; Zhang, Linbo
8
2013
Relative dielectric constants and selectivity ratios in open ionic channels. Zbl 1394.92039
Eisenberg, Bob; Liu, Weishi
8
2017
High-order fractional partial differential equation transform for molecular surface construction. Zbl 1277.35338
Hu, Langhua; Chen, Duan; Wei, Guo-Wei
6
2013
Progress in developing Poisson-Boltzmann equation solvers. Zbl 1277.65086
Li, Chuan; Li, Lin; Petukh, Marharyta; Alexov, Emil
5
2013
Geometric singular approach to Poisson-Nernst-Planck models with excess chemical potentials: ion size effects on individual fluxes. Zbl 1394.92046
Zhang, Mingji; Zhang, Jianbao; Acheampong, Daniel
5
2017
A Poisson-Boltzmann equation test model for protein in spherical solute region and its applications. Zbl 1347.92006
Jiang, Yi; Ying, Jinyong; Xie, Dexuan
5
2014
SDPBS web server for calculation of electrostatics of ionic solvated biomolecules. Zbl 1347.92025
Jiang, Yi; Xie, Yang; Ying, Jinyong; Xie, Dexuan; Yu, Zeyun
5
2015
A boundary integral Poisson-Boltzmann solvers package for solvated bimolecular simulations. Zbl 1347.92005
Geng, Weihua
4
2015
A knot polynomial invariant for analysis of topology of RNA stems and protein disulfide bonds. Zbl 1394.92099
Tian, Wei; Lei, Xue; Kauffman, Louis H.; Liang, Jie
3
2017
Modeling repulsive forces on fibres via knot energies. Zbl 1347.92020
Blatt, Simon; Reiter, Philipp
3
2014
Curvature concentrations on the HIV-1 capsid. Zbl 1347.92026
Liu, Jiangguo; Sadre-Marandi, Farrah; Tavener, Simon; Chen, Chaoping
3
2015
Multi-core CPU or GPU-accelerated multiscale modeling for biomolecular complexes. Zbl 1276.92030
Liao, Tao; Zhang, Yongjie; Kekenes-Huskey, Peter M.; Cheng, Yuhui; Michailova, Anushka; McCulloch, Andrew D.; Holst, Michael; McCammon, J. Andrew
2
2013
Minimization and Eulerian formulation of differential geometry based nonpolar multiscale solvation models. Zbl 1394.92037
Chen, Zhan
2
2016
Poisson-Fermi formulation of nonlocal electrostatics in electrolyte solutions. Zbl 1394.35519
Liu, Jinn-Liang; Xie, Dexuan; Eisenberg, Bob
2
2017
Generating vectors for the lattice structures of tubular and conical viral capsids. Zbl 1347.92027
Sadre-Marandi, Farrah; Liu, Jiangguo; Tavener, Simon; Chen, Chaoping
2
2014
Modeling and computation of heterogeneous implicit solvent and its applications for biomolecules. Zbl 1347.92021
Chen, Duan
2
2014
Modification of Bikerman model with specific ion sizes. Zbl 1398.92071
Horng, Tzyy-Leng; Tsai, Ping-Hsuan; Lin, Tai-Chia
1
2017
Dynamics of current, charge and mass. Zbl 1394.92012
Eisenberg, Bob; Oriols, Xavier; Ferry, David
1
2017
Topological complexity in protein structures. Zbl 1347.92055
Flapan, Erica; Heller, Gabriella
1
2015
Modeling and simulation of thermo-fluid-electrochemical ion flow in biological channels. Zbl 1347.92008
Sacco, Riccardo; Manganini, Fabio; Jerome, Joseph W.
1
2015
Relative dielectric constants and selectivity ratios in open ionic channels. Zbl 1394.92039
Eisenberg, Bob; Liu, Weishi
8
2017
Geometric singular approach to Poisson-Nernst-Planck models with excess chemical potentials: ion size effects on individual fluxes. Zbl 1394.92046
Zhang, Mingji; Zhang, Jianbao; Acheampong, Daniel
5
2017
A knot polynomial invariant for analysis of topology of RNA stems and protein disulfide bonds. Zbl 1394.92099
Tian, Wei; Lei, Xue; Kauffman, Louis H.; Liang, Jie
3
2017
Poisson-Fermi formulation of nonlocal electrostatics in electrolyte solutions. Zbl 1394.35519
Liu, Jinn-Liang; Xie, Dexuan; Eisenberg, Bob
2
2017
Modification of Bikerman model with specific ion sizes. Zbl 1398.92071
Horng, Tzyy-Leng; Tsai, Ping-Hsuan; Lin, Tai-Chia
1
2017
Dynamics of current, charge and mass. Zbl 1394.92012
Eisenberg, Bob; Oriols, Xavier; Ferry, David
1
2017
Minimization and Eulerian formulation of differential geometry based nonpolar multiscale solvation models. Zbl 1394.92037
Chen, Zhan
2
2016
A topological approach for protein classification. Zbl 1347.92054
Cang, Zixuan; Mu, Lin; Wu, Kedi; Opron, Kristopher; Xia, Kelin; Wei, Guo-Wei
14
2015
SDPBS web server for calculation of electrostatics of ionic solvated biomolecules. Zbl 1347.92025
Jiang, Yi; Xie, Yang; Ying, Jinyong; Xie, Dexuan; Yu, Zeyun
5
2015
A boundary integral Poisson-Boltzmann solvers package for solvated bimolecular simulations. Zbl 1347.92005
Geng, Weihua
4
2015
Curvature concentrations on the HIV-1 capsid. Zbl 1347.92026
Liu, Jiangguo; Sadre-Marandi, Farrah; Tavener, Simon; Chen, Chaoping
3
2015
Topological complexity in protein structures. Zbl 1347.92055
Flapan, Erica; Heller, Gabriella
1
2015
Modeling and simulation of thermo-fluid-electrochemical ion flow in biological channels. Zbl 1347.92008
Sacco, Riccardo; Manganini, Fabio; Jerome, Joseph W.
1
2015
Modeling and simulating asymmetrical conductance changes in gramicidin pores. Zbl 1323.92090
Xu, Shixin; Chen, Minxin; Majd, Sheereen; Yue, Xingye; Liu, Chun
12
2014
A Poisson-Boltzmann equation test model for protein in spherical solute region and its applications. Zbl 1347.92006
Jiang, Yi; Ying, Jinyong; Xie, Dexuan
5
2014
Modeling repulsive forces on fibres via knot energies. Zbl 1347.92020
Blatt, Simon; Reiter, Philipp
3
2014
Generating vectors for the lattice structures of tubular and conical viral capsids. Zbl 1347.92027
Sadre-Marandi, Farrah; Liu, Jiangguo; Tavener, Simon; Chen, Chaoping
2
2014
Modeling and computation of heterogeneous implicit solvent and its applications for biomolecules. Zbl 1347.92021
Chen, Duan
2
2014
Fully implicit ADI schemes for solving the nonlinear Poisson-Boltzmann equation. Zbl 1276.65063
Geng, Weihua; Zhao, Shan
11
2013
Parallel adaptive finite element algorithms for solving the coupled electro-diffusion equations. Zbl 1276.35143
Xie, Yan; Cheng, Jie; Lu, Benzhuo; Zhang, Linbo
8
2013
High-order fractional partial differential equation transform for molecular surface construction. Zbl 1277.35338
Hu, Langhua; Chen, Duan; Wei, Guo-Wei
6
2013
Progress in developing Poisson-Boltzmann equation solvers. Zbl 1277.65086
Li, Chuan; Li, Lin; Petukh, Marharyta; Alexov, Emil
5
2013
Multi-core CPU or GPU-accelerated multiscale modeling for biomolecular complexes. Zbl 1276.92030
Liao, Tao; Zhang, Yongjie; Kekenes-Huskey, Peter M.; Cheng, Yuhui; Michailova, Anushka; McCulloch, Andrew D.; Holst, Michael; McCammon, J. Andrew
2
2013
all cited Publications top 5 cited Publications
all top 5

Cited by 176 Authors

10 Zhao, Shan
7 Zhang, Mingji
6 Lu, Benzhuo
5 Wei, Guowei
5 Xie, Dexuan
5 Ying, Jinyong
4 Liu, Weishi
4 Sadre-Marandi, Farrah
4 Yang, Ying
3 Bates, Peter W.
3 Chen, Chaoping
3 Li, Chuan
3 Liu, Chun
3 Liu, Jiangguo
3 Tavener, Simon J.
3 Zhou, Shenggao
2 Alexov, Emil
2 Ceniceros, Jose
2 Chen, Minxin
2 Chen, Zhan
2 Deng, Weishan
2 Elhamdadi, Mohamed
2 Fang, Mingjuan
2 Gao, Huadong
2 Geng, Weihua
2 Ji, Guanghua
2 Jiang, Yi
2 Kusano, Genki
2 Liao, Tao
2 Lu, Hong
2 Mandal, Sayan
2 Metti, Maximilian S.
2 Mofidi, Hamid
2 Owolabi, Kolade Matthew
2 Shao, Yuanzhen
2 Shen, Ruigang
2 Shu, Shi
2 Sun, Pengtao
2 Ullah, Sheik Ahmed
2 Wang, Cheng
2 Wen, Zhenshu
2 Wise, Steven M.
2 Xia, Kelin
2 Xu, Jin
2 Xu, Jinchao
2 Yue, Xingye
2 Zhang, Lijun
2 Zhang, Yongjie Jessica
2 Zhu, Wanwan
1 Abbaszadeh, Mostafa
1 Abbate, Emanuela
1 Aitbayev, Rakhim
1 Basu, Saugata
1 Blair, Ryan C.
1 Bochkov, Daniil
1 Borgert, J. E.
1 Bousquet, Arthur
1 Bramer, David
1 Calcina, Sabrina S.
1 Cang, Zixuan
1 Cao, Xiulei
1 Chen, Duan
1 Chen, Gang
1 Chen, Jiahui
1 Chen, Jianing
1 Chen, Minhong
1 Chen, Xiaowei
1 Cheng, Yuhui
1 Chowdhury, Rochishnu
1 Das, Praachi
1 Dehghan Takht Fooladi, Mehdi
1 Dey, Tamal Krishna
1 Dou, Wei
1 Egan, Raphael
1 Estrada, Ernesto
1 Flapan, Erica
1 Fukumizu, Kenji
1 Gabrovšek, Boštjan
1 Gameiro, Marcio F.
1 Gerlach, Henryk
1 Gharibi, Zeinab
1 Gibou, Frédéric
1 Guzmán-Sáenz, Aldo
1 Haiminen, Niina
1 Hamelryck, Thomas
1 Hao, Tingting
1 Hawkins, Elizabeth V.
1 Hazra, Tania
1 Hiraoka, Yasuaki
1 Holst, Michael J.
1 Horng, Tzyy-Leng
1 Hu, Jingzhen
1 Hu, Xiaozhe
1 Huang, Huaxiong
1 Keane, Laura M.
1 Kekenes-Huskey, Peter M.
1 Komissar, Josef
1 Kozai, Kenji
1 Kucherova, Anna
1 Lahrani, Hitakshi
...and 76 more Authors
all top 5

Cited in 49 Journals

8 Journal of Computational Physics
6 Journal of Computational and Applied Mathematics
5 Journal of Scientific Computing
5 Computational and Mathematical Biophysics
4 Computers & Mathematics with Applications
4 Molecular Based Mathematical Biology
3 SIAM Journal on Applied Mathematics
3 SIAM Journal on Scientific Computing
3 Discrete and Continuous Dynamical Systems. Series B
2 Computer Physics Communications
2 Bulletin of Mathematical Biology
2 Applied Mathematics and Computation
2 Numerical Methods for Partial Differential Equations
2 Mathematical Biosciences and Engineering
2 Communications in Computational Physics
2 Journal of Theoretical Biology
1 Archive for Rational Mechanics and Analysis
1 Computer Methods in Applied Mechanics and Engineering
1 Journal of Mathematical Biology
1 Journal of Mathematical Physics
1 Journal of Statistical Physics
1 Mathematics of Computation
1 Mathematics and Computers in Simulation
1 Mathematische Nachrichten
1 Quarterly of Applied Mathematics
1 Studies in Applied Mathematics
1 Mathematica Numerica Sinica
1 Applied Mathematics Letters
1 Japan Journal of Industrial and Applied Mathematics
1 Numerical Algorithms
1 Applied Mathematical Modelling
1 Journal of Dynamics and Differential Equations
1 Journal of Nonlinear Science
1 The New York Journal of Mathematics
1 Advances in Computational Mathematics
1 Soft Computing
1 Communications of the Korean Mathematical Society
1 Acta Mathematica Sinica. English Series
1 Communications in Nonlinear Science and Numerical Simulation
1 Journal of Machine Learning Research (JMLR)
1 SIAM Journal on Applied Dynamical Systems
1 Journal of Physics A: Mathematical and Theoretical
1 Discrete and Continuous Dynamical Systems. Series S
1 Advances in Applied Mathematics and Mechanics
1 Communications in Mathematical Research
1 Applied Mathematics and Nonlinear Sciences
1 Actes des Rencontres du C.I.R.M.
1 Journal of Applied and Computational Topology
1 Foundations of Data Science
all top 5

Cited in 25 Fields

45 Biology and other natural sciences (92-XX)
41 Numerical analysis (65-XX)
38 Partial differential equations (35-XX)
25 Optics, electromagnetic theory (78-XX)
14 Ordinary differential equations (34-XX)
8 Algebraic topology (55-XX)
7 Manifolds and cell complexes (57-XX)
7 Statistics (62-XX)
5 Dynamical systems and ergodic theory (37-XX)
5 Calculus of variations and optimal control; optimization (49-XX)
4 Statistical mechanics, structure of matter (82-XX)
3 Differential geometry (53-XX)
3 Computer science (68-XX)
1 General and overarching topics; collections (00-XX)
1 Combinatorics (05-XX)
1 Algebraic geometry (14-XX)
1 Measure and integration (28-XX)
1 General topology (54-XX)
1 Global analysis, analysis on manifolds (58-XX)
1 Probability theory and stochastic processes (60-XX)
1 Mechanics of deformable solids (74-XX)
1 Fluid mechanics (76-XX)
1 Classical thermodynamics, heat transfer (80-XX)
1 Quantum theory (81-XX)
1 Information and communication theory, circuits (94-XX)

Citations by Year