Simulations of Biological Systems
Multi-Physics Models of Cancer Cells
Computational Methods and Software for Bioelectric Field Problems|
C.R. Johnson. In Biomedical Engineering Handbook, 2nd Edition, Vol. 1, Ch. 23, Edited by J.D. Bronzino, CRC Press, Boca Raton, pp. 1--23. 2006.
Controlled Support MEG Imaging|
S. Nagarajan, O. Portniaguine, D. Hwang, C.R. Johnson, K. Sekihara. In NeuroImage, Vol. 15;33, No. 3, pp. 878--885. 2006.
|Reconstructing the Pathways of a Cellular System from Genome-Scale Signals by Using Matrix and Tensor Computations,
O. Alter, G.H. Golub. In Proceedings of the National Academy of Sciences, Vol. 102, No. 49, Proceedings of the National Academy of Sciences, pp. 17559--17564. November, 2005.
Influence of Stochastic Organ Conductivity in 2D ECG Forward Modeling: A Stochastic Finite Element Study|
S.E. Geneser, S. Choe, R.M. Kirby, R.S. MacLeod. In Proceedings of The Joint Meeting of The 5th International Conference on Bioelectromagnetism and The 5th International Symposium on Noninvasive Functional Source Imaging within the Human Brain and Heart, pp. 5528--5531. 2005.
Computational Simulation of Penetrating Trauma in Biological Soft Tissues Using the Material Point Method|
I. Ionescu, J. Guilkey, M. Berzins, R.M. Kirby, J.A. Weiss. In Proceedings, Medicine Meets Virtual Reality, Vol. 13, Edited by James D Westwood et al., IOS Press, pp. 213--218. 2005.
Influence of Local and Remote White Matter Conductivity Anisotropy for a Thalamic Source on EEG/MEG Field and Return Current Computation|
C. H. Wolters, A. Anwander, X. Tricoche, S. Lew, C.R. Johnson. In Int.Journal of Bioelectromagnetism, Vol. 7, No. 1, pp. 203--206. 2005.
Advanced Modeling and Visualization of Cardiothoracic Electrical Fields|
F. Sachse, M. Cole, R.M. Kirby, X. Tricoche, C.R. Johnson. In Proceedings of 13th Medicine Meets Virtual Reality (MMVR13), 2005.
Novel Genome-Scale Correlation Between DNA Replication and RNA Transcription During the Cell Cycle in Yeast is Predicted by Data-Driven Models|
O. Alter, G.H. Golub, P.O. Brown, D. Botstein. In Proceedings of the Miami Nature Biotechnology Winter Symposium on the Cell Cycle, Chromosomes and Cancer, Vol. 15, Edited by M.P. Deutscher and S. Black and P.E. Boehmer and G. D'Urso and T. Fletcher and F. Huijing and A. Marshall and B. Pulverer and B. Renault and J.D. Rosenblatt and J.M. Slingerland and W.J. Whelan, 2004.
|Integrative Analysis of Genome-Scale Data by Using Pseudoinverse Projection Predicts Novel Correlation Between DNA Replication and RNA Transcription,
O. Alter, G.H. Golub. In Proceedings of the National Academy of Sciences, Vol. 101, No. 47, Proceedings of the National Academy of Sciences, pp. 16577--16582. November, 2004.
Biomedical Computing and Visualization Software Environments|
C.R. Johnson, R.S. MacLeod, S.G. Parker, D.M. Weinstein. In Comm. ACM, Vol. 47, No. 11, pp. 64--71. 2004.
Influence of Head Tissue Conductivity in Forward and Inverse Magnetoencephalographic Simulations Using Realistic Head Models|
R. Van Uitert, C.R. Johnson, L. Zhukov. In IEEE Trans Biomed. Eng., Vol. 51, No. 12, pp. 2129--2137. 2004.
Three-dimensional Propagation in Mathematic Models: Integrative Model of the Mouse Heart|
C.S. Henriquez, J.V. Tranquillo, D.M. Weinstein, E.W. Hsu, C.R. Johnson. In Cardiac Electrophysiology: From Cell to Bedside, 4th edition, Ch. 30, Edited by D.P. Zipes and J. Jalife, Saunders, pp. 273--281. 2004.
A Software Framework for Solving Problems of Bioelectricity Applying High-Order Finite Elements|
M. Cole, F.B. Sachse, D.M. Weinstein, S.G. Parker, R.M. Kirby. In Proceedings of the IEEE Engineering in Medicine and Biology Society 26th Annual International Conference, Vol. 1, pp. 821--824. 2004.
Generalized Singular Value Decomposition for Comparative Analysis of Genome-Scale Expression Datasets of Two Different Organisms|
O. Alter, P.O. Brown, D. Botstein. In Proceedings of the National Academy of Sciences, Vol. 100, No. 6, Proceedings of the National Academy of Sciences, pp. 3351--3356. March, 2003.
Volume Currents in Forward and Inverse Magnetoencephalographic Simulations Using Realistic Head Models|
R. Van Uitert, D. Weinstein, C.R. Johnson. In Annals of Biomedical Engineering, Vol. 31, pp. 21--31. 2003.
Minimum Support MEG (Magnetoencephalography) Imaging: Study on Effects of Noise, Discretization, Depth, and Separation of Multiple Sources|
D. Hwang, O. Portniaguine, S. Nagarajan, C.R. Johnson, K. Sekihara. In World Congress on Medical Physics and Biomedical Engineering, August, 2003.
Influence of Brain Conductivity on Magnetoencephalographic Simulations in Realistic Head Models|
R. Van Uitert, C.R. Johnson. In The 25th Annual International Conference of the IEEE Engineering In Medicine And Biology Society, Vol. 3, pp. 2136--2139. September, 2003.
BioPSE Case Study: Modeling, Simulation, and Visualization of Three Dimensional Mouse Heart Propagation|
D.M. Weinstein, J.V. Tranquillo, C.S. Henriquez, C.R. Johnson. In International Journal of Bioelectromagnetism, Vol. 5, No. 1, pp. 314--315. 2003.
|Molecular Characterisation of Soft Tissue Tumours: a Gene Expression Study,
T. Nielsen, R.B. West, S.C. Linn, O. Alter, M.A. Knowling, J. O'Connell, S. Zhu, M. Fero, G. Sherlock, J.R. Pollack, P.O. Brown, D. Botstein, M. van de Rijn. In Lancet, Vol. 359, No. 9314, pp. 1301–-1307. April, 2002.
Performance of a Minimum-Support Imaging Method for Biomagnetic Source Localization|
S.S. Nagarajan, O. Portniaguine, K. Sekihara, D. Hwang, C.R. Johnson. In Proceedings of the IEEE Engineering in Medicine and Biology Society 24th Annual International Conference, Houston, Vol. 3, pp. 2006-2007. October, 2002.