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Models of Systems Properties and Processes

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Skeletal muscle: A review of molecular structure and function, in health and disease

Advanced Review
Shankar Subramaniam, Kavitha Mukund
Published Online: Aug 13 2019
DOI:10.1002/wsbm.1462

Abstract Full article on Wiley Online Library:   HTML | PDF
Hybrid modeling frameworks of tumor development and treatment

UPDATE
Ibrahim M. Chamseddine, Katarzyna A. Rejniak
Published Online: Jul 17 2019
DOI:10.1002/wsbm.1461

Abstract Full article on Wiley Online Library:   HTML | PDF
Stochastic simulation algorithms for computational systems biology: Exact, approximate, and hybrid methods

Advanced Review
Giulia Simoni, Federico Reali, Corrado Priami, Luca Marchetti
Published Online: Jul 01 2019
DOI:10.1002/wsbm.1459

Abstract Full article on Wiley Online Library:   HTML | PDF
Agent‐based models of inflammation in translational systems biology: A decade later

UPDATE
Yoram Vodovotz, Gary An
Published Online: Jul 01 2019
DOI:10.1002/wsbm.1460

Abstract Full article on Wiley Online Library:   HTML | PDF
Multiscale modeling of the neuromuscular system: Coupling neurophysiology and skeletal muscle mechanics

Advanced Review
Oliver Röhrle, Utku Ş. Yavuz, Thomas Klotz, Francesco Negro, Thomas Heidlauf
Published Online: Jun 24 2019
DOI:10.1002/wsbm.1457

Abstract Full article on Wiley Online Library:   HTML | PDF
IL7 receptor signaling in T cells: A mathematical modeling perspective

Overview
Jung‐Hyun Park, Adam T. Waickman, Joseph Reynolds, Mario Castro, Carmen Molina‐París
Published Online: May 28 2019
DOI:10.1002/wsbm.1447

Abstract Full article on Wiley Online Library:   HTML | PDF
Essential contributions of enhancer genomic regulatory elements to microglial cell identity and functions

Focus Article
André Machado Xavier, Sarah Belhocine, David Gosselin
Published Online: Apr 23 2019
DOI:10.1002/wsbm.1449

Abstract Full article on Wiley Online Library:   HTML | PDF
Calcium signals that determine vascular resistance

Focus Article
Matteo Ottolini, Kwangseok Hong, Swapnil K. Sonkusare
Published Online: Mar 18 2019
DOI:10.1002/wsbm.1448

Abstract Full article on Wiley Online Library:   HTML | PDF
Towards multiscale modeling of the CD8+ T cell response to viral infections

Advanced Review
Subhasish Baral, Rubesh Raja, Pramita Sen, Narendra M. Dixit
Published Online: Feb 27 2019
DOI:10.1002/wsbm.1446

Abstract Full article on Wiley Online Library:   HTML | PDF
Integrating molecular networks with genetic variant interpretation for precision medicine

Overview
Emidio Capriotti, Kivilcim Ozturk, Hannah Carter
Published Online: Dec 12 2018
DOI:10.1002/wsbm.1443

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology of robustness and homeostatic mechanisms

Overview
Michael C. Reed, Janet A. Best, H. Frederik Nijhout
Published Online: Oct 29 2018
DOI:10.1002/wsbm.1440

Abstract Full article on Wiley Online Library:   HTML | PDF
Mathematical modeling of circadian rhythms

Focus Article
Ameneh Asgari‐Targhi, Elizabeth B. Klerman
Published Online: Oct 17 2018
DOI:10.1002/wsbm.1439

Abstract Full article on Wiley Online Library:   HTML | PDF
Context‐dependent regulation of receptor tyrosine kinases: Insights from systems biology approaches

Focus Article
Inez Lam, Christina M. Pickering, Feilim Mac Gabhann
Published Online: Sep 26 2018
DOI:10.1002/wsbm.1437

Abstract Full article on Wiley Online Library:   HTML | PDF
The mammalian mycobiome: A complex system in a dynamic relationship with the host

Advanced Review
Ghee Chuan Lai, Tze Guan Tan, Norman Pavelka
Published Online: Sep 25 2018
DOI:10.1002/wsbm.1438

Abstract Full article on Wiley Online Library:   HTML | PDF
Computational methods for analyzing and modeling genome structure and organization

Focus Article
Dejun Lin, Giancarlo Bonora, Galip Gürkan Yardımcı, William S. Noble
Published Online: Jul 18 2018
DOI:10.1002/wsbm.1435

Abstract Full article on Wiley Online Library:   HTML | PDF
Quantitative systems models illuminate arrhythmia mechanisms in heart failure: Role of the Na+‐Ca2+‐Ca2+/calmodulin‐dependent protein kinase II‐reactive oxygen species feedback

Focus Article
Stefano Morotti, Eleonora Grandi
Published Online: Jul 17 2018
DOI:10.1002/wsbm.1434

Abstract Full article on Wiley Online Library:   HTML | PDF
Computational anatomy and diffeomorphometry: A dynamical systems model of neuroanatomy in the soft condensed matter continuum

Advanced Review
Laurent Younes, Daniel J. Tward, Sylvain Arguillère, Michael I. Miller
Published Online: Jun 04 2018
DOI:10.1002/wsbm.1425

Abstract Full article on Wiley Online Library:   HTML | PDF
Kinetic models of hematopoietic differentiation

Advanced Review
Victor Olariu, Carsten Peterson
Published Online: Apr 16 2018
DOI:10.1002/wsbm.1424

Abstract Full article on Wiley Online Library:   HTML | PDF
Multiscale systems biology of trauma‐induced coagulopathy

Focus Article
Evan Tsiklidis, Carrie Sims, Talid Sinno, Scott L. Diamond
Published Online: Feb 27 2018
DOI:10.1002/wsbm.1418

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Genome‐scale metabolic models applied to human health and disease

Advanced Review
Jens Nielsen, Daniel J Cook
Published Online: Jun 23 2017
DOI:10.1002/wsbm.1393

Abstract Full article on Wiley Online Library:   HTML | PDF
Image‐based computational fluid dynamics in the lung: virtual reality or new clinical practice?

Advanced Review
Haribalan Kumar, Jan De Backer, Kelly S. Burrowes
Published Online: Jun 13 2017
DOI:10.1002/wsbm.1392

Abstract Full article on Wiley Online Library:   HTML | PDF
The best models of metabolism

Advanced Review
Eberhard O. Voit
Published Online: May 19 2017
DOI:10.1002/wsbm.1391

Abstract Full article on Wiley Online Library:   HTML | PDF
Biomechanics of the human uterus

Focus Article
Kristin M. Myers, David Elad
Published Online: May 12 2017
DOI:10.1002/wsbm.1388

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology of cellular membranes: a convergence with biophysics

Advanced Review
Morgan Chabanon, Jeanne C. Stachowiak, Padmini Rangamani
Published Online: May 05 2017
DOI:10.1002/wsbm.1386

Abstract Full article on Wiley Online Library:   HTML | PDF
Trends in high‐throughput and functional neuroimaging in Caenorhabditis elegans

Focus Article
Yongmin Cho, Charles L. Zhao, Hang Lu
Published Online: Feb 21 2017
DOI:10.1002/wsbm.1376

Abstract Full article on Wiley Online Library:   HTML | PDF
Recent lab‐on‐chip developments for novel drug discovery

Opinion
Nauman Khalid, Isao Kobayashi, Mitsutoshi Nakajima
Published Online: Feb 17 2017
DOI:10.1002/wsbm.1381

Abstract Full article on Wiley Online Library:   HTML | PDF
Understanding the mTOR signaling pathway via mathematical modeling

Advanced Review
Melanie Boerries, Hauke Busch, Martin Klose, Nurgazy Sulaimanov
Published Online: Feb 10 2017
DOI:10.1002/wsbm.1379

Abstract Full article on Wiley Online Library:   HTML | PDF
Multiscale modeling methods in biomechanics

Advanced Review
Pinaki Bhattacharya, Marco Viceconti
Published Online: Jan 19 2017
DOI:10.1002/wsbm.1375

Abstract Full article on Wiley Online Library:   HTML | PDF
Insights into nuclear dynamics using live‐cell imaging approaches

Advanced Review
Rachel B. Bigley, Alexander Y. Payumo, Jeffrey M. Alexander, Guo N. Huang
Published Online: Jan 12 2017
DOI:10.1002/wsbm.1372

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Toward modeling locomotion using electromyography‐informed 3D models: application to cerebral palsy

Focus Article
M. Sartori, J. W. Fernandez, L. Modenese, C. P. Carty, L. A. Barber, K. Oberhofer, J. Zhang, G. G. Handsfield, N. S. Stott, T. F. Besier, D. Farina, D. G. Lloyd
Published Online: Dec 21 2016
DOI:10.1002/wsbm.1368

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling, signaling and cytoskeleton dynamics: integrated modeling‐experimental frameworks in cell migration

Advanced Review
Meng Sun, Muhammad H. Zaman
Published Online: Nov 15 2016
DOI:10.1002/wsbm.1365

Abstract Full article on Wiley Online Library:   HTML | PDF
Mathematical modeling of the female reproductive system: from oocyte to delivery

Overview
Alys R Clark, Jennifer A Kruger
Published Online: Sep 09 2016
DOI:10.1002/wsbm.1353

Abstract Full article on Wiley Online Library:   HTML | PDF
In silico bone mechanobiology: modeling a multifaceted biological system

Advanced Review
Mario Giorgi, Stefaan W. Verbruggen, Damien Lacroix
Published Online: Sep 07 2016
DOI:10.1002/wsbm.1356

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling the second stage of labor

Focus Article
Xiani Yan, Jennifer A. Kruger, Xinshan Li, Poul M. F. Nielsen, Martyn P. Nash
Published Online: Aug 25 2016
DOI:10.1002/wsbm.1351

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems‐level airway models of bronchoconstriction

Focus Article
Graham M. Donovan
Published Online: Jun 27 2016
DOI:10.1002/wsbm.1349

Abstract Full article on Wiley Online Library:   HTML | PDF
Omics‐based approaches to understand mechanosensitive endothelial biology and atherosclerosis

Advanced Review
Rachel D. Simmons, Sandeep Kumar, Salim Raid Thabet, Sanjoli Sur, Hanjoong Jo
Published Online: Jun 24 2016
DOI:10.1002/wsbm.1344

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems physiology of the airways in health and obstructive pulmonary disease

Advanced Review
Jason H.T. Bates
Published Online: Jun 24 2016
DOI:10.1002/wsbm.1347

Abstract Full article on Wiley Online Library:   HTML | PDF
Multiscale modeling of brain dynamics: from single neurons and networks to mathematical tools

Advanced Review
Constantinos Siettos, Jens Starke
Published Online: Jun 24 2016
DOI:10.1002/wsbm.1348

Abstract Full article on Wiley Online Library:   HTML | PDF
Mathematical models of breast and ovarian cancers

Advanced Review
Dana‐Adriana Botesteanu, Stanley Lipkowitz, Jung‐Min Lee, Doron Levy
Published Online: Jun 03 2016
DOI:10.1002/wsbm.1343

Abstract Full article on Wiley Online Library:   HTML | PDF
Role of frameshift ubiquitin B protein in Alzheimer's disease

Advanced Review
Xin Chen, Dina Petranovic
Published Online: May 30 2016
DOI:10.1002/wsbm.1340

Abstract Full article on Wiley Online Library:   HTML | PDF
Signaling via the NFκB system

Advanced Review
Alexander Hoffmann, Jesse Vargas, Simon Mitchell
Published Online: Mar 16 2016
DOI:10.1002/wsbm.1331

Abstract Full article on Wiley Online Library:   HTML | PDF
Heart valve regeneration: the need for systems approaches

Focus Article
Jenna Usprech, Wen Li Kelly Chen, Craig A. Simmons
Published Online: Feb 09 2016
DOI:10.1002/wsbm.1329

Abstract Full article on Wiley Online Library:   HTML | PDF
Aging and computational systems biology

Advanced Review
Mark T. Mc Auley, Amy E. Morgan, Kathleen M. Mooney
Published Online: Jan 29 2016
DOI:10.1002/wsbm.1328

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling microcirculatory blood flow: current state and future perspectives

Focus Article
Dmitry A. Fedosov, Gerhard Gompper
Published Online: Dec 22 2015
DOI:10.1002/wsbm.1326

Abstract Full article on Wiley Online Library:   HTML | PDF
Dynamics of the mammalian cell cycle in physiological and pathological conditions

Focus Article
Claude Gérard, Albert Goldbeter
Published Online: Nov 27 2015
DOI:10.1002/wsbm.1325

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling calcium regulation of contraction, energetics, signaling, and transcription in the cardiac myocyte

Advanced Review
Raimond L. Winslow, Mark A. Walker, Joseph L. Greenstein
Published Online: Nov 12 2015
DOI:10.1002/wsbm.1322

Abstract Full article on Wiley Online Library:   HTML | PDF
The virtual intestine: in silico modeling of small intestinal electrophysiology and motility and the applications

Advanced Review
Peng Du, Niranchan Paskaranandavadivel, Timothy R. Angeli, Leo K. Cheng, Gregory O'Grady
Published Online: Nov 12 2015
DOI:10.1002/wsbm.1324

Abstract Full article on Wiley Online Library:   HTML | PDF
In search for symmetries in the metabolism of cancer

Advanced Review
Francesco Gatto, Jens Nielsen
Published Online: Nov 05 2015
DOI:10.1002/wsbm.1321

Abstract Full article on Wiley Online Library:   HTML | PDF
The macrophage and its role in inflammation and tissue repair: mathematical and systems biology approaches

Focus Article
Joanne L. Dunster
Published Online: Oct 13 2015
DOI:10.1002/wsbm.1320

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems analysis of host–parasite interactions

Advanced Review
Justine Swann, Neema Jamshidi, Nathan E. Lewis, Elizabeth A. Winzeler
Published Online: Aug 26 2015
DOI:10.1002/wsbm.1311

Abstract Full article on Wiley Online Library:   HTML | PDF
Measurement and modeling of coronary blood flow

Overview
Matthew D. Sinclair, Jack Lee, Andrew N. Cookson, Simone Rivolo, Eoin R. Hyde, Nicolas P. Smith
Published Online: Jun 30 2015
DOI:10.1002/wsbm.1309

Abstract Full article on Wiley Online Library:   HTML | PDF
Topology, dynamics, and heterogeneity in immune signaling

Advanced Review
J. Taylor Webb, Marcelo Behar
Published Online: May 27 2015
DOI:10.1002/wsbm.1306

Abstract Full article on Wiley Online Library:   HTML | PDF
The cell as the mechanistic basis for evolution

Advanced Review
J.S. Torday
Published Online: May 25 2015
DOI:10.1002/wsbm.1305

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology of host–microbe metabolomics

Advanced Review
Almut Heinken, Ines Thiele
Published Online: Apr 30 2015
DOI:10.1002/wsbm.1301

Abstract Full article on Wiley Online Library:   HTML | PDF
Bringing computational models of bone regeneration to the clinic

Advanced Review
Aurélie Carlier, Liesbet Geris, Johan Lammens, Hans Van Oosterwyck
Published Online: Apr 21 2015
DOI:10.1002/wsbm.1299

Abstract Full article on Wiley Online Library:   HTML | PDF
Integration of systems glycobiology with bioinformatics toolboxes, glycoinformatics resources, and glycoproteomics data

Advanced Review
Gang Liu, Sriram Neelamegham
Published Online: Apr 13 2015
DOI:10.1002/wsbm.1296

Abstract Full article on Wiley Online Library:   HTML | PDF
Integrative models of vascular remodeling during tumor growth

Advanced Review
Heiko Rieger, Michael Welter
Published Online: Mar 21 2015
DOI:10.1002/wsbm.1295

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems engineering meets quantitative systems pharmacology: from low‐level targets to engaging the host defenses

Opinion
Ioannis P. Androulakis
Published Online: Mar 16 2015
DOI:10.1002/wsbm.1294

Abstract Full article on Wiley Online Library:   HTML | PDF
Integrating multi‐scale knowledge on cardiac development into a computational model of ventricular trabeculation

Focus Article
Bouke A. de Boer, Jean‐François Le Garrec, Vincent M. Christoffels, Sigolène M. Meilhac, Jan M. Ruijter
Published Online: Oct 06 2014
DOI:10.1002/wsbm.1285

Abstract Full article on Wiley Online Library:   HTML | PDF
Tuneable resolution as a systems biology approach for multi‐scale, multi‐compartment computational models

Advanced Review
Denise E. Kirschner, C. Anthony Hunt, Simeone Marino, Mohammad Fallahi‐Sichani, Jennifer J. Linderman
Published Online: Aug 08 2014
DOI:10.1002/wsbm.1270

Abstract Full article on Wiley Online Library:   HTML | PDF
Cell mechanics: principles, practices, and prospects

Overview
Emad Moeendarbary, Andrew R. Harris
Published Online: Jul 28 2014
DOI:10.1002/wsbm.1275

Abstract Full article on Wiley Online Library:   HTML | PDF
Boolean modeling: a logic‐based dynamic approach for understanding signaling and regulatory networks and for making useful predictions

Overview
Réka Albert, Juilee Thakar
Published Online: Jul 15 2014
DOI:10.1002/wsbm.1273

Abstract Full article on Wiley Online Library:   HTML | PDF
Tactile sensory system: encoding from the periphery to the cortex

Focus Article
Lynette A. Jones, Allan M. Smith
Published Online: Mar 19 2014
DOI:10.1002/wsbm.1267

Abstract Full article on Wiley Online Library:   HTML | PDF
Signaling networks in palate development

Focus Article
Jamie Lane, Vesa Kaartinen
Published Online: Mar 18 2014
DOI:10.1002/wsbm.1265

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling the intracellular organization of calcium signaling

Advanced Review
Geneviève Dupont
Published Online: Mar 06 2014
DOI:10.1002/wsbm.1261

Abstract Full article on Wiley Online Library:   HTML | PDF
Apolipoprotein E receptor pathways in Alzheimer disease

Advanced Review
Vanessa Schmidt, Anne‐Sophie Carlo, Thomas E. Willnow
Published Online: Mar 06 2014
DOI:10.1002/wsbm.1262

Abstract Full article on Wiley Online Library:   HTML | PDF
Personalizing oncology treatments by predicting drug efficacy, side‐effects, and improved therapy: mathematics, statistics, and their integration

Advanced Review
Zvia Agur, Moran Elishmereni, Yuri Kheifetz
Published Online: Mar 06 2014
DOI:10.1002/wsbm.1263

Abstract Full article on Wiley Online Library:   HTML | PDF
Glass‐like dynamics in the cell and in cellular collectives

Advanced Review
Monirosadat Sadati, Amir Nourhani, Jeffrey J. Fredberg, Nader Taheri Qazvini
Published Online: Jan 15 2014
DOI:10.1002/wsbm.1258

Abstract Full article on Wiley Online Library:   HTML | PDF
Advances in modeling ventricular arrhythmias: from mechanisms to the clinic

Focus Article
Natalia A. Trayanova, Patrick M. Boyle
Published Online: Dec 06 2013
DOI:10.1002/wsbm.1256

Abstract Full article on Wiley Online Library:   HTML | PDF
The structure of dynamic GPCR signaling networks

Focus Article
N. Gautam, K. V. Venkatesh, Anilkumar K. Patel, W. K. Ajith Karunarathne, Lopamudra Giri, Patrick R. O'Neill
Published Online: Nov 08 2013
DOI:10.1002/wsbm.1249

Abstract Full article on Wiley Online Library:   HTML | PDF
Rule‐based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems

Overview
Lily A. Chylek, Leonard A. Harris, Chang‐Shung Tung, James R. Faeder, Carlos F. Lopez, William S. Hlavacek
Published Online: Sep 30 2013
DOI:10.1002/wsbm.1245

Abstract Full article on Wiley Online Library:   HTML | PDF
Molecular mechanisms underlying neuronal synaptic plasticity: systems biology meets computational neuroscience in the wilds of synaptic plasticity

Advanced Review
Kim T. Blackwell, Joanna Jedrzejewska‐Szmek
Published Online: Sep 09 2013
DOI:10.1002/wsbm.1240

Abstract Full article on Wiley Online Library:   HTML | PDF
Integrative approaches for modeling regulation and function of the respiratory system

Overview
Alona Ben‐Tal, Merryn H. Tawhai
Published Online: Sep 09 2013
DOI:10.1002/wsbm.1244

Abstract Full article on Wiley Online Library:   HTML | PDF
Computational approaches for understanding energy metabolism

Focus Article
Alexander A. Shestov, Brandon Barker, Zhenglong Gu, Jason W. Locasale
Published Online: Jul 29 2013
DOI:10.1002/wsbm.1238

Abstract Full article on Wiley Online Library:   HTML | PDF
Endothelial cell motility, coordination and pattern formation during vasculogenesis

Advanced Review
Andras Czirok
Published Online: Jul 15 2013
DOI:10.1002/wsbm.1233

Abstract Full article on Wiley Online Library:   HTML | PDF
Mathematical modeling of kidney transport

Advanced Review
Anita T. Layton
Published Online: Jul 12 2013
DOI:10.1002/wsbm.1232

Abstract Full article on Wiley Online Library:   HTML | PDF
Multiscale image‐based modeling and simulation of gas flow and particle transport in the human lungs

Focus Article
Ching‐Long Lin, Merryn H. Tawhai, Eric A. Hoffman
Published Online: Jul 10 2013
DOI:10.1002/wsbm.1234

Abstract Full article on Wiley Online Library:   HTML | PDF
Computational and experimental characterization of skin mechanics: identifying current challenges and future directions

Advanced Review
Jessica W.Y. Jor, Matthew D. Parker, Andrew J. Taberner, Martyn P. Nash, Poul M.F. Nielsen
Published Online: Jun 11 2013
DOI:10.1002/wsbm.1228

Abstract Full article on Wiley Online Library:   HTML | PDF
A conceptual framework for computational models of Achilles tendon homeostasis

Advanced Review
David W. Smith, Jonas Rubenson, David Lloyd, Minghao Zheng, Justin Fernandez, Thor Besier, Jiake Xu, Bruce S. Gardiner
Published Online: Jun 11 2013
DOI:10.1002/wsbm.1229

Abstract Full article on Wiley Online Library:   HTML | PDF
Excitable behavior in amoeboid chemotaxis

Focus Article
Changji Shi, Pablo A. Iglesias
Published Online: Jun 11 2013
DOI:10.1002/wsbm.1230

Abstract Full article on Wiley Online Library:   HTML | PDF
Agent‐based modeling: a systematic assessment of use cases and requirements for enhancing pharmaceutical research and development productivity

Advanced Review
C. Anthony Hunt, Ryan C. Kennedy, Sean H. J. Kim, Glen E. P. Ropella
Published Online: Jun 04 2013
DOI:10.1002/wsbm.1222

Abstract Full article on Wiley Online Library:   HTML | PDF
Mathematical modeling of folate metabolism

Focus Article
John C. Panetta, Steven W. Paugh, William E. Evans
Published Online: May 22 2013
DOI:10.1002/wsbm.1227

Abstract Full article on Wiley Online Library:   HTML | PDF
How changes in fibril‐level organization correlate with the macrolevel behavior of articular cartilage

Focus Article
Mieke Nickien, Ashvin Thambyah, Neil Broom
Published Online: Apr 01 2013
DOI:10.1002/wsbm.1220

Abstract Full article on Wiley Online Library:   HTML | PDF
Toward a quantitative understanding of the Wnt/β‐catenin pathway through simulation and experiment

Overview
Bethan Lloyd‐Lewis, Alexander G. Fletcher, Trevor C. Dale, Helen M. Byrne
Published Online: Mar 29 2013
DOI:10.1002/wsbm.1221

Abstract Full article on Wiley Online Library:   HTML | PDF
Toward the virtual stomach: progress in multiscale modeling of gastric electrophysiology and motility

Focus Article
Peng Du, Gregory O'Grady, Jerry Gao, Shameer Sathar, Leo K. Cheng
Published Online: Mar 05 2013
DOI:10.1002/wsbm.1218

Abstract Full article on Wiley Online Library:   HTML | PDF
Hierarchical approaches for systems modeling in cardiac development

Overview
Russell A. Gould, Lina M. Aboulmouna, Jeffrey D. Varner, Jonathan T. Butcher
Published Online: Mar 05 2013
DOI:10.1002/wsbm.1217

Abstract Full article on Wiley Online Library:   HTML | PDF
Engineered genetic information processing circuits

Overview
Hao Qi, Andrew Blanchard, Ting Lu
Published Online: Feb 26 2013
DOI:10.1002/wsbm.1216

Abstract Full article on Wiley Online Library:   HTML | PDF
Mechano‐sensing and transduction by endothelial surface glycocalyx: composition, structure, and function

Focus Article
Bingmei M. Fu, John M. Tarbell
Published Online: Feb 07 2013
DOI:10.1002/wsbm.1211

Abstract Full article on Wiley Online Library:   HTML | PDF
β‐Arrestin‐kinase scaffolds: turn them on or turn them off?

Focus Article
Alice Lin, Kathryn A. DeFea
Published Online: Jan 14 2013
DOI:10.1002/wsbm.1203

Abstract Full article on Wiley Online Library:   HTML | PDF
Model‐based design of experiments for cellular processes

Advanced Review
Ankush Chakrabarty, Gregery T. Buzzard, Ann E. Rundell
Published Online: Jan 04 2013
DOI:10.1002/wsbm.1204

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology of lung development and regeneration: current knowledge and recommendations for future research

Opinion
James S. Hagood, Namasivayam Ambalavanan
Published Online: Jan 04 2013
DOI:10.1002/wsbm.1205

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems analysis of biological networks in skeletal muscle function

Advanced Review
Lucas R. Smith, Gretchen Meyer, Richard L. Lieber
Published Online: Nov 27 2012
DOI:10.1002/wsbm.1197

Abstract Full article on Wiley Online Library:   HTML | PDF
Accelerating cancer systems biology research through Semantic Web technology

Overview
Zhihui Wang, Jonathan Sagotsky, Thomas Taylor, Patrick Shironoshita, Thomas S. Deisboeck
Published Online: Nov 27 2012
DOI:10.1002/wsbm.1200

Abstract Full article on Wiley Online Library:   HTML | PDF
Stem cell bioengineering at the interface of systems‐based models and high‐throughput platforms

Overview
Gregory H. Underhill
Published Online: Aug 23 2012
DOI:10.1002/wsbm.1189

Abstract Full article on Wiley Online Library:   HTML | PDF
Large‐scale mouse knockouts and phenotypes

Advanced Review
Ramiro Ramírez‐Solis, Edward Ryder, Richard Houghton, Jacqueline K. White, Joanna Bottomley
Published Online: Aug 15 2012
DOI:10.1002/wsbm.1183

Abstract Full article on Wiley Online Library:   HTML | PDF
Post‐translational modification: nature's escape from genetic imprisonment and the basis for dynamic information encoding

Advanced Review
Guy Lippens, Hanno Steen, Jeremy Gunawardena, Sudhakaran Prabakaran
Published Online: Aug 15 2012
DOI:10.1002/wsbm.1185

Abstract Full article on Wiley Online Library:   HTML | PDF
From base pair to bedside: molecular simulation and the translation of genomics to personalized medicine

Advanced Review
David W. Wright, Shunzhou Wan, Nour Shublaq, Stefan J. Zasada, Peter V. Coveney
Published Online: Aug 15 2012
DOI:10.1002/wsbm.1186

Abstract Full article on Wiley Online Library:   HTML | PDF
Mitochondrial network energetics in the heart

Advanced Review
Miguel A. Aon, Sonia Cortassa
Published Online: Aug 15 2012
DOI:10.1002/wsbm.1188

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology of skeletal muscle: fiber type as an organizing principle

Advanced Review
Sarah M. Greising, Heather M. Gransee, Carlos B. Mantilla, Gary C. Sieck
Published Online: Jul 18 2012
DOI:10.1002/wsbm.1184

Abstract Full article on Wiley Online Library:   HTML | PDF
Decoding the functions of post‐transcriptional regulators in the determination of inflammatory states: focus on macrophage activation

Focus Article
Panagiota Kafasla, Ioannis Karakasiliotis, Dimitris L. Kontoyiannis
Published Online: Jul 03 2012
DOI:10.1002/wsbm.1179

Abstract Full article on Wiley Online Library:   HTML | PDF
Complexity and the reductionism–holism debate in systems biology

Overview
Fulvio Mazzocchi
Published Online: Jul 03 2012
DOI:10.1002/wsbm.1181

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology approaches to toll‐like receptor signaling

Focus Article
Alexis Vandenbon, Shunsuke Teraguchi, Shizuo Akira, Kiyoshi Takeda, Daron M. Standley
Published Online: Jun 19 2012
DOI:10.1002/wsbm.1178

Abstract Full article on Wiley Online Library:   HTML | PDF
Hydrogels for in vivo‐like three‐dimensional cellular studies

Advanced Review
Hyun‐Joon Kong, Ross DeVolder
Published Online: May 21 2012
DOI:10.1002/wsbm.1174

Abstract Full article on Wiley Online Library:   HTML | PDF
Sex and the circuitry: progress toward a systems‐level understanding of vertebrate sex determination

Focus Article
Blanche Capel, Steven C. Munger
Published Online: May 17 2012
DOI:10.1002/wsbm.1172

Abstract Full article on Wiley Online Library:   HTML | PDF
Deciphering the complexities of human diseases and disorders by coupling induced‐pluripotent stem cells and systems genetics

Advanced Review
Wing Y. Chang, Kamal Garcha, Janet L. Manias, William L. Stanford
Published Online: Apr 10 2012
DOI:10.1002/wsbm.1170

Abstract Full article on Wiley Online Library:   HTML | PDF
Isotope labeling experiments in metabolomics and fluxomics

Advanced Review
Sebastian Klein, Elmar Heinzle
Published Online: Mar 23 2012
DOI:10.1002/wsbm.1167

Abstract Full article on Wiley Online Library:   HTML | PDF
Theoretical insights into bacterial chemotaxis

Advanced Review
Marcus J. Tindall, Eamonn A. Gaffney, Philip K. Maini, Judith P. Armitage
Published Online: Mar 12 2012
DOI:10.1002/wsbm.1168

Abstract Full article on Wiley Online Library:   HTML | PDF
Multiscale models of thrombogenesis

Advanced Review
Zhiliang Xu, Oleg Kim, Malgorzata Kamocka, Elliot D. Rosen, Mark Alber
Published Online: Jan 13 2012
DOI:10.1002/wsbm.1160

Abstract Full article on Wiley Online Library:   HTML | PDF
The virtual liver: a multidisciplinary, multilevel challenge for systems biology

Overview
Hermann‐Georg Holzhütter, Dirk Drasdo, Tobias Preusser, Jörg Lippert, Adriano M. Henney
Published Online: Jan 13 2012
DOI:10.1002/wsbm.1158

Abstract Full article on Wiley Online Library:   HTML | PDF
Virtual Cell: computational tools for modeling in cell biology

Advanced Review
Diana C. Resasco, Fei Gao, Frank Morgan, Igor L. Novak, James C. Schaff, Boris M. Slepchenko
Published Online: Dec 02 2011
DOI:10.1002/wsbm.165

Abstract Full article on Wiley Online Library:   HTML | PDF
Computational models for the study of heart–lung interactions in mammals

Advanced Review
Alona Ben‐Tal
Published Online: Dec 02 2011
DOI:10.1002/wsbm.167

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems vaccinology: learning to compute the behavior of vaccine induced immunity

Focus Article
Helder I. Nakaya, Shuzhao Li, Bali Pulendran
Published Online: Oct 19 2011
DOI:10.1002/wsbm.163

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling of spatially‐restricted intracellular signaling

Focus Article
Susana R. Neves
Published Online: Jul 15 2011
DOI:10.1002/wsbm.155

Abstract Full article on Wiley Online Library:   HTML | PDF
Mathematical models in biology: from molecules to life

Advanced Review
Yiannis N. Kaznessis
Published Online: Feb 18 2011
DOI:10.1002/wsbm.142

Abstract Full article on Wiley Online Library:   HTML | PDF
Estrogen receptor‐positive breast cancer: a multidisciplinary challenge

Focus Article
Wilbert Zwart, Vasiliki Theodorou, Jason S. Carroll
Published Online: Feb 08 2011
DOI:10.1002/wsbm.109

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Signaling pathways that control cell migration: models and analysis

Focus Article
Erik S. Welf, Jason M. Haugh
Published Online: Feb 08 2011
DOI:10.1002/wsbm.110

Abstract Full article on Wiley Online Library:   HTML | PDF
A multifaceted approach to modeling the immune response in tuberculosis

Focus Article
Simeone Marino, Jennifer J. Linderman, Denise E. Kirschner
Published Online: Dec 31 2010
DOI:10.1002/wsbm.131

Abstract Full article on Wiley Online Library:   HTML | PDF
Simulation of cellular biochemical system kinetics

Opinion
Daniel A. Beard
Published Online: Dec 17 2010
DOI:10.1002/wsbm.116

Abstract Full article on Wiley Online Library:   HTML | PDF
Hybrid models of tumor growth

Focus Article
Katarzyna A. Rejniak, Alexander R. A. Anderson
Published Online: Dec 16 2010
DOI:10.1002/wsbm.102

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Electrophysiological models of neural processing

Focus Article
Mark E. Nelson
Published Online: Dec 16 2010
DOI:10.1002/wsbm.95

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Calcium dynamics and signaling in vascular regulation: computational models

Focus Article
Nikolaos Michael Tsoukias
Published Online: Dec 16 2010
DOI:10.1002/wsbm.97

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Integrative modeling of the cardiac ventricular myocyte

Advanced Review
Raimond L. Winslow, Sonia Cortassa, Brian O'Rourke, Yasmin L. Hashambhoy, John Jeremy Rice, Joseph L. Greenstein
Published Online: Sep 23 2010
DOI:10.1002/wsbm.122

Abstract Full article on Wiley Online Library:   HTML | PDF
In silico models of bone remodeling from macro to nano—from organ to cell

Focus Article
Duncan Webster, Ralph Müller
Published Online: Aug 25 2010
DOI:10.1002/wsbm.115

Abstract Full article on Wiley Online Library:   HTML | PDF
Circadian oscillators in eukaryotes

Advanced Review
Ingunn W. Jolma, Ole Didrik Laerum, Cathrine Lillo, Peter Ruoff
Published Online: Aug 04 2010
DOI:10.1002/wsbm.81

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Odor representations in the mammalian olfactory bulb

Focus Article
Adil Ghani Khan, K. Parthasarathy, Upinder Singh Bhalla
Published Online: Aug 04 2010
DOI:10.1002/wsbm.85

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling of blood flow in arterial trees

Focus Article
Tomer Anor, Leopold Grinberg, Hyoungsu Baek, Joseph R. Madsen, Mahesh V. Jayaraman, George E. Karniadakis
Published Online: Aug 04 2010
DOI:10.1002/wsbm.90

Abstract Full article on Wiley Online Library:   HTML | PDF
In silico models of cancer

Advanced Review
Lucas B. Edelman, James A. Eddy, Nathan D. Price
Published Online: Jun 15 2010
DOI:10.1002/wsbm.75

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling actin dynamics

Focus Article
Mike Bindschadler
Published Online: Jun 15 2010
DOI:10.1002/wsbm.62

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling childbirth: elucidating the mechanisms of labor

Focus Article
Xinshan Li, Jennifer A. Kruger, Martyn P. Nash, Poul M.F. Nielsen
Published Online: Jun 15 2010
DOI:10.1002/wsbm.65

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling breast biomechanics for multi‐modal image analysis—successes and challenges

Advanced Review
Vijay Rajagopal, Poul M. F. Nielsen, Martyn P. Nash
Published Online: Apr 09 2010
DOI:10.1002/wsbm.58

Abstract Full article on Wiley Online Library:   HTML | PDF
Evolution of transcriptional regulatory networks in yeast populations

Advanced Review
Duccio Cavalieri
Published Online: Apr 09 2010
DOI:10.1002/wsbm.68

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology of pro‐angiogenic therapies targeting the VEGF system

Focus Article
Feilim Mac Gabhann, Amina A. Qutub, Brian H. Annex, Aleksander S. Popel
Published Online: Apr 07 2010
DOI:10.1002/wsbm.92

Abstract Full article on Wiley Online Library:   HTML | PDF
Computational modeling of mammalian signaling networks

Advanced Review
Jacob J. Hughey, Timothy K. Lee, Markus W. Covert
Published Online: Mar 26 2010
DOI:10.1002/wsbm.52

Abstract Full article on Wiley Online Library:   HTML | PDF
Toward a VPH/Physiome ToolKit

Overview
Alan Garny, Jonathan Cooper, Peter J. Hunter
Published Online: Mar 26 2010
DOI:10.1002/wsbm.63

Abstract Full article on Wiley Online Library:   HTML | PDF
Models at the single cell level

Advanced Review
Raymond Cheong, Saurabh Paliwal, Andre Levchenko
Published Online: Jan 15 2010
DOI:10.1002/wsbm.49

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology of GAL regulon in Saccharomyces cerevisiae

Focus Article
Venkat Reddy Pannala, Paike Jayadeva Bhat, Sharad Bhartiya, K. V. Venkatesh
Published Online: Jan 15 2010
DOI:10.1002/wsbm.38

Abstract Full article on Wiley Online Library:   HTML | PDF
T cell responses in lymph nodes

Focus Article
Gib Bogle, P. Rod Dunbar
Published Online: Jan 15 2010
DOI:10.1002/wsbm.47

Abstract Full article on Wiley Online Library:   HTML | PDF
Genome‐scale metabolic networks

Advanced Review
Marco Terzer, Nathaniel D. Maynard, Markus W. Covert, Jörg Stelling
Published Online: Nov 13 2009
DOI:10.1002/wsbm.37

Abstract Full article on Wiley Online Library:   HTML | PDF
Kidney modeling and systems physiology

Advanced Review
S. Randall Thomas
Published Online: Sep 22 2009
DOI:10.1002/wsbm.14

Abstract Full article on Wiley Online Library:   HTML | PDF
Computational modeling of epithelial tissues

Advanced Review
Rod Smallwood
Published Online: Sep 22 2009
DOI:10.1002/wsbm.18

Abstract Full article on Wiley Online Library:   HTML | PDF
Spatial regulation of PI3K signaling during chemotaxis

Focus Article
Pablo A. Iglesias
Published Online: Sep 22 2009
DOI:10.1002/wsbm.13

Abstract Full article on Wiley Online Library:   HTML | PDF
Regulation of endothelial cell functions by basement membrane‐ and arachidonic acid‐derived products

Focus Article
Ambra Pozzi, Roy Zent
Published Online: Sep 22 2009
DOI:10.1002/wsbm.7

Abstract Full article on Wiley Online Library:   HTML | PDF
Four‐dimensional dynamics of MAPK information‐processing systems

Advanced Review
Boris N. Kholodenko, Marc R. Birtwistle
Published Online: May 05 2009
DOI:10.1002/wsbm.16

Abstract Full article on Wiley Online Library:   HTML | PDF
The lung physiome: merging imaging‐based measures with predictive computational models

Advanced Review
Merryn H. Tawhai, Eric A. Hoffman, Ching‐Long Lin
Published Online: May 05 2009
DOI:10.1002/wsbm.17

Abstract Full article on Wiley Online Library:   HTML | PDF
Design principles of the bacterial quorum sensing gene networks

Advanced Review
Andrew B. Goryachev
Published Online: May 05 2009
DOI:10.1002/wsbm.27

Abstract Full article on Wiley Online Library:   HTML | PDF
Multiscale systems integration in the eye

Advanced Review
Marc D. Jacobs
Published Online: May 05 2009
DOI:10.1002/wsbm.29

Abstract Full article on Wiley Online Library:   HTML | PDF
Eukaryotic chemotaxis

Focus Article
Wouter‐Jan Rappel, William F. Loomis
Published Online: May 05 2009
DOI:10.1002/wsbm.28

Abstract Full article on Wiley Online Library:   HTML | PDF
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