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Biological Mechanisms

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The shifting shape and functional specializations of the cell cycle during lineage development

Focus Article
Yung Hwang, Daniel Hidalgo, Merav Socolovsky
Published Online: Sep 11 2020
DOI:10.1002/wsbm.1504

Abstract Full article on Wiley Online Library:   HTML | PDF
Lights up on organelles: Optogenetic tools to control subcellular structure and organization

Advanced Review
Therese C. Kichuk, César Carrasco‐López, José L. Avalos
Published Online: Jul 26 2020
DOI:10.1002/wsbm.1500

Abstract Full article on Wiley Online Library:   HTML | PDF
Mammalian cell and tissue imaging using Raman and coherent Raman microscopy

Advanced Review
Anthony A. Fung, Lingyan Shi
Published Online: Jul 19 2020
DOI:10.1002/wsbm.1501

Abstract Full article on Wiley Online Library:   HTML | PDF
Regulating cellular cyclic adenosine monophosphate: “Sources,” “sinks,” and now, “tunable valves”

Focus Article
Michael Getz, Padmini Rangamani, Pradipta Ghosh
Published Online: Apr 23 2020
DOI:10.1002/wsbm.1490

Abstract Full article on Wiley Online Library:   HTML | PDF
Modeling immune cell behavior across scales in cancer

Advanced Review
Sahak Z. Makaryan, Colin G. Cess, Stacey D. Finley
Published Online: Mar 04 2020
DOI:10.1002/wsbm.1484

Abstract Full article on Wiley Online Library:   HTML | PDF
The immunologic Warburg effect: Evidence and therapeutic opportunities in autoimmunity

Advanced Review
Michael D. Kornberg
Published Online: Feb 27 2020
DOI:10.1002/wsbm.1486

Abstract Full article on Wiley Online Library:   HTML | PDF
Glucose transporter 1 in rheumatoid arthritis and autoimmunity

Advanced Review
Ekaterina Zezina, Oezen Sercan‐Alp, Matthias Herrmann, Nadine Biesemann
Published Online: Feb 21 2020
DOI:10.1002/wsbm.1483

Abstract Full article on Wiley Online Library:   HTML | PDF
Intracellular signaling dynamics and their role in coordinating tissue repair

Focus Article
Samuel J. Ghilardi, Breanna M. O'Reilly, Allyson E. Sgro
Published Online: Feb 08 2020
DOI:10.1002/wsbm.1479

Abstract Full article on Wiley Online Library:   HTML | PDF
Liver gene regulatory networks: Contributing factors to nonalcoholic fatty liver disease

Advanced Review
Inês Cebola
Published Online: Feb 04 2020
DOI:10.1002/wsbm.1480

Abstract Full article on Wiley Online Library:   HTML | PDF
Growth control in the Drosophila wing disk

Advanced Review
Jia Gou, Jay A. Stotsky, Hans G. Othmer
Published Online: Jan 09 2020
DOI:10.1002/wsbm.1478

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Single‐cell analysis of CD8 T lymphocyte diversity during adaptive immunity

Focus Article
Janilyn Arsenio
Published Online: Dec 26 2019
DOI:10.1002/wsbm.1475

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Lactate: Fueling the fire starter

Advanced Review
Michelangelo Certo, Giancarlo Marone, Amato Paulis, Claudio Mauro, Valentina Pucino
Published Online: Dec 16 2019
DOI:10.1002/wsbm.1474

Abstract Full article on Wiley Online Library:   HTML | PDF
Theory of cell fate

Primer
Michael J. Casey, Patrick S. Stumpf, Ben D. MacArthur
Published Online: Dec 12 2019
DOI:10.1002/wsbm.1471

Abstract Full article on Wiley Online Library:   HTML | PDF
Applications of stable isotope‐based metabolomics and fluxomics toward synthetic biology of cyanobacteria

Advanced Review
Piyoosh Kumar Babele, Jamey D. Young
Published Online: Dec 09 2019
DOI:10.1002/wsbm.1472

Abstract Full article on Wiley Online Library:   HTML | PDF
Network architecture and regulatory logic in neural crest development

Focus Article
Austin S. Hovland, Megan Rothstein, Marcos Simoes‐Costa
Published Online: Nov 08 2019
DOI:10.1002/wsbm.1468

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Going low to reach high: Small‐scale ChIP‐seq maps new terrain

Advanced Review
Madeleine Fosslie, Adeel Manaf, Mads Lerdrup, Klaus Hansen, Gregor D. Gilfillan, John Arne Dahl
Published Online: Sep 03 2019
DOI:10.1002/wsbm.1465

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Decoding pluripotency: Genetic screens to interrogate the acquisition, maintenance, and exit of pluripotency

Overview
Qing V. Li, Bess P. Rosen, Danwei Huangfu
Published Online: Aug 13 2019
DOI:10.1002/wsbm.1464

Abstract Full article on Wiley Online Library:   HTML | PDF
Neutrophils in innate immunity and systems biology‐level approaches

UPDATE
Viktoria Rungelrath, Scott D. Kobayashi, Frank R. DeLeo
Published Online: Jun 20 2019
DOI:10.1002/wsbm.1458

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
Circadian rhythms and proteomics: It's all about posttranslational modifications!

Focus Article
Daniel Mauvoisin
Published Online: Apr 29 2019
DOI:10.1002/wsbm.1450

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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

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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

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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
Hannah Carter, Kivilcim Ozturk, Emidio Capriotti
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
H. Frederik Nijhout, Janet A. Best, Michael C. Reed
Published Online: Oct 29 2018
DOI:10.1002/wsbm.1440

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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

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Committing the primordial germ cell: An updated molecular perspective

Advanced Review
Haihan Tan, Wee‐Wei Tee
Published Online: Sep 17 2018
DOI:10.1002/wsbm.1436

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The mechanistic basis for chromatin regulation by pioneer transcription factors

Advanced Review
Makiko Iwafuchi‐Doi
Published Online: Jun 27 2018
DOI:10.1002/wsbm.1427

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Cell cycle regulation of folate‐mediated one‐carbon metabolism

Advanced Review
Patrick J. Stover, Martha S. Field, Xu Lan
Published Online: Jun 11 2018
DOI:10.1002/wsbm.1426

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Diversification of transcription factor–DNA interactions and the evolution of gene regulatory networks

Advanced Review
Julia M. Rogers, Martha L. Bulyk
Published Online: Apr 25 2018
DOI:10.1002/wsbm.1423

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Mechanisms of Wnt signaling and control

Overview
Stephanie Grainger, Karl Willert
Published Online: Mar 30 2018
DOI:10.1002/wsbm.1422

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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Chromatin modifications in metabolic disease: Potential mediators of long‐term disease risk

Focus Article
Kevin R. Costello, Dustin E. Schones
Published Online: Jan 25 2018
DOI:10.1002/wsbm.1416

Abstract Full article on Wiley Online Library:   HTML | PDF
Genome‐scale metabolic models applied to human health and disease

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

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
Genome organization during the cell cycle: unity in division

Focus Article
Rosela Golloshi, Jacob T. Sanders, Rachel Patton McCord
Published Online: May 16 2017
DOI:10.1002/wsbm.1389

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
Systems biology of oxygen homeostasis

Advanced Review
Debangshu Samanta, Nanduri R. Prabhakar, Gregg L. Semenza
Published Online: Feb 21 2017
DOI:10.1002/wsbm.1382

Abstract Full article on Wiley Online Library:   HTML | PDF
Physiological, metabolic and biotechnological features of extremely thermophilic microorganisms

Advanced Review
James A. Counts, Benjamin M. Zeldes, Laura L. Lee, Christopher T. Straub, Michael W.W. Adams, Robert M. Kelly
Published Online: Feb 16 2017
DOI:10.1002/wsbm.1377

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

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

Abstract Full article on Wiley Online Library:   HTML | PDF
Regulatory elements in molecular networks

Advanced Review
Ashley S. Doane, Olivier Elemento
Published Online: Jan 17 2017
DOI:10.1002/wsbm.1374

Abstract Full article on Wiley Online Library:   HTML | PDF
Traditional and novel tools to probe the mitochondrial metabolism in health and disease

Advanced Review
Yanfei Zhang, José L. Avalos
Published Online: Jan 09 2017
DOI:10.1002/wsbm.1373

Abstract Full article on Wiley Online Library:   HTML | PDF
Cancer and inflammation

Overview
Lance L. Munn
Published Online: Dec 12 2016
DOI:10.1002/wsbm.1370

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
Data sources for in vivo molecular profiling of human phenotypes

Advanced Review
Timothy Cardozo, Priyanka Gupta, Eric Ni, Lauren M. Young, Doreen Tivon, Klara Felsovalyi
Published Online: Sep 07 2016
DOI:10.1002/wsbm.1354

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
The reverse control of irreversible biological processes

Opinion
Kwang‐Hyun Cho, Jae Il Joo, Dongkwan Shin, Dongsan Kim, Sang‐Min Park
Published Online: Jun 21 2016
DOI:10.1002/wsbm.1346

Abstract Full article on Wiley Online Library:   HTML | PDF
CRISPR/Cas9 genome editing throws descriptive 3‐D genome folding studies for a loop

Advanced Review
Jonathan A. Beagan, Jennifer E. Phillips‐Cremins
Published Online: Jun 06 2016
DOI:10.1002/wsbm.1338

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems medicine in colorectal cancer: from a mathematical model toward a new type of clinical trial

Advanced Review
Nicoletta Castagnino, Massimo Maffei, Lorenzo Tortolina, Gabriele Zoppoli, Daniela Piras, Alessio Nencioni, Eva Moran, Alberto Ballestrero, Franco Patrone, Silvio Parodi
Published Online: May 30 2016
DOI:10.1002/wsbm.1342

Abstract Full article on Wiley Online Library:   HTML | PDF
Mitochondrial metabolic remodeling in response to genetic and environmental perturbations

Advanced Review
Kate E.R. Hollinshead, Daniel A. Tennant
Published Online: May 19 2016
DOI:10.1002/wsbm.1334

Abstract Full article on Wiley Online Library:   HTML | PDF
Adaptive resistance to antibiotics in bacteria: a systems biology perspective

Advanced Review
Santiago Sandoval‐Motta, Maximino Aldana
Published Online: Apr 21 2016
DOI:10.1002/wsbm.1335

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

Advanced Review
Simon Mitchell, Jesse Vargas, Alexander Hoffmann
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
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
Systems biology approaches for identifying adverse drug reactions and elucidating their underlying biological mechanisms

Advanced Review
Nicholas P. Tatonetti, Robert Moskovitch, Joseph D. Romano, Tal Lorberbaum, Alexandra Jacunski, Mary Regina Boland
Published Online: Nov 12 2015
DOI:10.1002/wsbm.1323

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
Metabolic network modeling of microbial communities

Advanced Review
Matthew B. Biggs, Gregory L. Medlock, Glynis L. Kolling, Jason A. Papin
Published Online: Jun 24 2015
DOI:10.1002/wsbm.1308

Abstract Full article on Wiley Online Library:   HTML | PDF
Implementation of integral feedback control in biological systems

Advanced Review
Pramod R. Somvanshi, Anilkumar K. Patel, Sharad Bhartiya, K. V. Venkatesh
Published Online: Jun 02 2015
DOI:10.1002/wsbm.1307

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
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
Experience‐sensitive epigenetic mechanisms, developmental plasticity, and the biological embedding of chronic disease risk

Overview
Vincent T. Cunliffe
Published Online: Feb 20 2015
DOI:10.1002/wsbm.1291

Abstract Full article on Wiley Online Library:   HTML | PDF
A systems view of epigenetic networks regulating pancreas development and β‐cell function

Opinion
Ruiyu Xie, Andrea C. Carrano, Maike Sander
Published Online: Jan 27 2015
DOI:10.1002/wsbm.1287

Abstract Full article on Wiley Online Library:   HTML | PDF
Integrating omics into the cardiac differentiation of human pluripotent stem cells

Focus Article
Agustin Rojas‐Muñoz, Mano R. Maurya, Frederick Lo, Erik Willems
Published Online: Aug 08 2014
DOI:10.1002/wsbm.1268

Abstract Full article on Wiley Online Library:   HTML | PDF
Large scale molecular simulations of nanotoxicity

Focus Article
Camilo A. Jimenez‐Cruz, Seung‐gu Kang, Ruhong Zhou
Published Online: Aug 08 2014
DOI:10.1002/wsbm.1271

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
Drug discovery and the maze of biological complexity: an editorial essay

Editorial Commentary
Shankar Subramaniam
Published Online: Mar 19 2014
DOI:10.1002/wsbm.1266

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
Genome network medicine: innovation to overcome huge challenges in cancer therapy

Focus Article
Dimitrios H. Roukos
Published Online: Dec 06 2013
DOI:10.1002/wsbm.1254

Abstract Full article on Wiley Online Library:   HTML | PDF
Regulatory variation: an emerging vantage point for cancer biology

Overview
Luolan Li, Alireza Lorzadeh, Martin Hirst
Published Online: Nov 19 2013
DOI:10.1002/wsbm.1250

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

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

Abstract Full article on Wiley Online Library:   HTML | PDF
miRNA regulation in the context of functional protein networks: principles and applications

Focus Article
Mohammed Alshalalfa
Published Online: Nov 08 2013
DOI:10.1002/wsbm.1251

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
Neural stem and progenitor cells in health and disease

Advanced Review
Ian Ladran, Ngoc Tran, Aaron Topol, Kristen J. Brennand
Published Online: Sep 20 2013
DOI:10.1002/wsbm.1239

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
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
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
Cell‐specific integration of nuclear receptor function at the genome

Focus Article
Logan J. Everett, Mitchell A. Lazar
Published Online: Jun 11 2013
DOI:10.1002/wsbm.1231

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
Fatty acid oxidation: systems analysis and applications

Focus Article
Angela Cintolesi, María Rodríguez‐Moyá, Ramon Gonzalez
Published Online: May 09 2013
DOI:10.1002/wsbm.1226

Abstract Full article on Wiley Online Library:   HTML | PDF
Cyclic nucleotide signaling in intestinal epithelia: getting to the gut of the matter

Overview
Najla Arshad, Sandhya S. Visweswariah
Published Online: Apr 22 2013
DOI:10.1002/wsbm.1223

Abstract Full article on Wiley Online Library:   HTML | PDF
Riding the crest of the wave: parallels between the neural crest and cancer in epithelial‐to‐mesenchymal transition and migration

Focus Article
Davalyn R. Powell, Alex J. Blasky, Steven G. Britt, Kristin B. Artinger
Published Online: Apr 10 2013
DOI:10.1002/wsbm.1224

Abstract Full article on Wiley Online Library:   HTML | PDF
Branched‐chain amino acid supplementation: impact on signaling and relevance to critical illness

Advanced Review
John S. A. Mattick, Kubra Kamisoglu, Marianthi G. Ierapetritou, Ioannis P. Androulakis, Francois Berthiaume
Published Online: Mar 29 2013
DOI:10.1002/wsbm.1219

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
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
Modeling cellular compartmentation in one‐carbon metabolism

Advanced Review
Marco Scotti, Lorenzo Stella, Emily J. Shearer, Patrick J. Stover
Published Online: Feb 13 2013
DOI:10.1002/wsbm.1209

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology of adipose tissue metabolism: regulation of growth, signaling and inflammation

Advanced Review
Sara Manteiga, Kyungoh Choi, Arul Jayaraman, Kyongbum Lee
Published Online: Feb 13 2013
DOI:10.1002/wsbm.1213

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
The adaptor protein LAT serves as an integration node for signaling pathways that drive T cell activation

Focus Article
Rebekah R. Bartelt, Jon C. D. Houtman
Published Online: Nov 13 2012
DOI:10.1002/wsbm.1194

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems biology approaches to finding novel pain mediators

Advanced Review
Ana Antunes‐Martins, James R. Perkins, Jonathan Lees, Tobias Hildebrandt, Christine Orengo, David L.H. Bennett
Published Online: Oct 11 2012
DOI:10.1002/wsbm.1192

Abstract Full article on Wiley Online Library:   HTML | PDF
Toward a systems‐level understanding of the Hedgehog signaling pathway: defining the complex, robust, and fragile

Focus Article
Pamela V. Tran, Salil A. Lachke, Rolf W. Stottmann
Published Online: Oct 11 2012
DOI:10.1002/wsbm.1193

Abstract Full article on Wiley Online Library:   HTML | PDF
Role of fibroblast growth factor signaling in vascular formation and maintenance: orchestrating signaling networks as an integrated system

Focus Article
Masahiro Murakami, Takashi Sakurai
Published Online: Aug 28 2012
DOI:10.1002/wsbm.1190

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
The role of regulatory T cells in neurodegenerative diseases

Advanced Review
Feng He, Rudi Balling
Published Online: Aug 15 2012
DOI:10.1002/wsbm.1187

Abstract Full article on Wiley Online Library:   HTML | PDF
The molecular circuitry underlying pluripotency in embryonic stem cells

Advanced Review
Aryeh Warmflash, Brigitte L. Arduini, Ali H. Brivanlou
Published Online: Jul 03 2012
DOI:10.1002/wsbm.1182

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
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
Understanding multimodal biological decisions from single cell and population dynamics

Advanced Review
Kumar Selvarajoo
Published Online: May 14 2012
DOI:10.1002/wsbm.1175

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
Linking genome to epigenome

Focus Article
Guo‐Cheng Yuan
Published Online: Feb 17 2012
DOI:10.1002/wsbm.1165

Abstract Full article on Wiley Online Library:   HTML | PDF
Establishing the stem cell state: insights from regulatory network analysis of blood stem cell development

Focus Article
Judith Schütte, Victoria Moignard, Berthold Göttgens
Published Online: Feb 14 2012
DOI:10.1002/wsbm.1163

Abstract Full article on Wiley Online Library:   HTML | PDF
Reverse‐engineering human regulatory networks

Advanced Review
Celine Lefebvre, Gabrielle Rieckhof, Andrea Califano
Published Online: Jan 13 2012
DOI:10.1002/wsbm.1159

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
Intercellular adhesion: mechanisms for growth and metastasis of epithelial cancers

Focus Article
Eric M. Balzer, Konstantinos Konstantopoulos
Published Online: Sep 12 2011
DOI:10.1002/wsbm.160

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Mechanistic modeling to investigate signaling by oncogenic Ras mutants

Focus Article
Edward C. Stites, Kodi S. Ravichandran
Published Online: Jul 15 2011
DOI:10.1002/wsbm.156

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Noncoding RNAs in gene regulation

Focus Article
Maxime Wery, Marta Kwapisz, Antonin Morillon
Published Online: Mar 04 2011
DOI:10.1002/wsbm.148

Abstract Full article on Wiley Online Library:   HTML | PDF
Lipid‐sensing nuclear receptors in the pathophysiology and treatment of the metabolic syndrome

Advanced Review
Michele Vacca, Chiara Degirolamo, Renato Mariani‐Costantini, Giuseppe Palasciano, Antonio Moschetta
Published Online: Feb 16 2011
DOI:10.1002/wsbm.137

Abstract Full article on Wiley Online Library:   HTML | PDF
Role of the nuclear envelope in genome organization and gene expression

Advanced Review
David W. Van de Vosse, Yakun Wan, Richard W. Wozniak, John D. Aitchison
Published Online: Feb 08 2011
DOI:10.1002/wsbm.101

Abstract Full article on Wiley Online Library:   HTML | PDF
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
Adaptation of cells to new environments

Advanced Review
Aaron N. Brooks, Serdar Turkarslan, Karlyn D. Beer, Fang Yin Lo, Nitin S. Baliga
Published Online: Dec 31 2010
DOI:10.1002/wsbm.136

Abstract Full article on Wiley Online Library:   HTML | PDF
Network biology: a direct approach to study biological function

Overview
Frank Emmert‐Streib, Galina V. Glazko
Published Online: Dec 31 2010
DOI:10.1002/wsbm.134

Abstract Full article on Wiley Online Library:   HTML | PDF
Advances in analysis of transcriptional regulatory networks

Advanced Review
Tae‐Min Kim, Peter J. Park
Published Online: Dec 16 2010
DOI:10.1002/wsbm.105

Abstract Full article on Wiley Online Library:   HTML | PDF
Calcium dynamics and signaling in vascular regulation: computational models

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

Abstract Full article on Wiley Online Library:   HTML | PDF
An energy systems approach to Parkinson's disease

Opinion
Mathieu Cloutier, Peter Wellstead
Published Online: Dec 16 2010
DOI:10.1002/wsbm.107

Abstract Full article on Wiley Online Library:   HTML | PDF
Mediators and dynamics of DNA methylation

Advanced Review
Robert Shoemaker, Wei Wang, Kun Zhang
Published Online: Sep 28 2010
DOI:10.1002/wsbm.124

Abstract Full article on Wiley Online Library:   HTML | PDF
Mechanisms of genetic regulation in gene expression: examples from drug metabolizing enzymes and transporters

Advanced Review
Dylan M. Glubb, Federico Innocenti
Published Online: Sep 23 2010
DOI:10.1002/wsbm.125

Abstract Full article on Wiley Online Library:   HTML | PDF
Protein–protein interaction networks and subnetworks in the biology of disease

Focus Article
Rod K. Nibbe, Salim A. Chowdhury, Mehmet Koyutürk, Rob Ewing, Mark R. Chance
Published Online: Sep 23 2010
DOI:10.1002/wsbm.121

Abstract Full article on Wiley Online Library:   HTML | PDF
Live cell imaging and systems biology

Advanced Review
Myong‐Hee Sung, James G. McNally
Published Online: Aug 20 2010
DOI:10.1002/wsbm.108

Abstract Full article on Wiley Online Library:   HTML | PDF
Systems analysis of alternative splicing and its regulation

Advanced Review
Xinshu Xiao, Jae‐Hyung Lee
Published Online: Aug 04 2010
DOI:10.1002/wsbm.84

Abstract Full article on Wiley Online Library:   HTML | PDF
APOBEC‐1‐mediated RNA editing

Focus Article
Valerie Blanc, Nicholas O. Davidson
Published Online: Aug 04 2010
DOI:10.1002/wsbm.82

Abstract Full article on Wiley Online Library:   HTML | PDF
DNA methylation and gene expression

Focus Article
Zahava Siegfried, Itamar Simon
Published Online: Apr 09 2010
DOI:10.1002/wsbm.64

Abstract Full article on Wiley Online Library:   HTML | PDF
Phosphoproteomics

Overview
Nurhan Ozlu, Bikem Akten, Wiebke Timm, Nathan Haseley, Hanno Steen, Judith A.J. Steen
Published Online: Apr 09 2010
DOI:10.1002/wsbm.41

Abstract Full article on Wiley Online Library:   HTML | PDF
MicroRNA targeting in mammalian genomes: genes and mechanisms

Advanced Review
S. A. Muljo, C. Kanellopoulou, L. Aravind
Published Online: Mar 26 2010
DOI:10.1002/wsbm.53

Abstract Full article on Wiley Online Library:   HTML | PDF
Systematic analysis of posttranscriptional gene expression

Advanced Review
Adam R. Morris, Neelanjan Mukherjee, Jack D. Keene
Published Online: Mar 26 2010
DOI:10.1002/wsbm.54

Abstract Full article on Wiley Online Library:   HTML | PDF
Circuitry of mRNA regulation

Focus Article
Alexander Kanitz, André P. Gerber
Published Online: Mar 26 2010
DOI:10.1002/wsbm.55

Abstract Full article on Wiley Online Library:   HTML | PDF
DNA methylation alterations in multiple myeloma as a model for epigenetic changes in cancer

Advanced Review
Amy Sharma, Christoph J. Heuck, Melissa J. Fazzari, Jayesh Mehta, Seema Singhal, John M. Greally, Amit Verma
Published Online: Mar 24 2010
DOI:10.1002/wsbm.89

Abstract Full article on Wiley Online Library:   HTML | PDF
Gene networks for nitrogen sensing, signaling, and response in Arabidopsis thaliana

Focus Article
Elena A. Vidal, Karem P. Tamayo, Rodrigo A. Gutierrez
Published Online: Mar 24 2010
DOI:10.1002/wsbm.87

Abstract Full article on Wiley Online Library:   HTML | PDF
Mechanotransduction: a major regulator of homeostasis and development

Overview
Kevin S. Kolahi, Mohammad R.K. Mofrad
Published Online: Mar 24 2010
DOI:10.1002/wsbm.79

Abstract Full article on Wiley Online Library:   HTML | PDF
The secret codes of mammalian scents

Overview
David M. Ferrero, Stephen D. Liberles
Published Online: Jan 15 2010
DOI:10.1002/wsbm.39

Abstract Full article on Wiley Online Library:   HTML | PDF
Adenosine‐to‐inosine RNA editing

Focus Article
Boris Zinshteyn, Kazuko Nishikura
Published Online: Sep 22 2009
DOI:10.1002/wsbm.10

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
NF‐κB signaling

Focus Article
Ellen O'Dea, Alexander Hoffmann
Published Online: May 05 2009
DOI:10.1002/wsbm.30

Abstract Full article on Wiley Online Library:   HTML | PDF
Integrin activation in the immune system

Focus Article
Carlo Laudanna, Matteo Bolomini‐Vittori
Published Online: May 05 2009
DOI:10.1002/wsbm.9

Abstract Full article on Wiley Online Library:   HTML | PDF
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