Andre Levchenko

Andre Levchenko

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Andre Levchenko

Publications by authors named "Andre Levchenko"

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Systems Biology of Cancer Metastasis.

Cell Syst 2019 Aug;9(2):109-127

Department of Biomedical Engineering, University of Connecticut Health Center, Farmington, CT, USA; Cancer Systems Biology @ Yale (CaSB@Yale), Yale University, West Haven, CT, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2019.07.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6716621PMC
August 2019

Dynamic secretome of bone marrow-derived stromal cells reveals a cardioprotective biochemical cocktail.

Proc Natl Acad Sci U S A 2019 Jul 25;116(28):14374-14383. Epub 2019 Jun 25.

Yale Institute of Systems Biology, Yale University, West Haven, CT 06516;

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http://dx.doi.org/10.1073/pnas.1902598116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6628676PMC
July 2019

Switch-like enhancement of epithelial-mesenchymal transition by YAP through feedback regulation of WT1 and Rho-family GTPases.

Nat Commun 2019 06 26;10(1):2797. Epub 2019 Jun 26.

Department of Biomedical Engineering and Yale Systems Biology Institute, Yale University, New Haven, CT, 06520, USA.

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http://dx.doi.org/10.1038/s41467-019-10729-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6594963PMC
June 2019

3D Analysis of Multi-cellular Responses to Chemoattractant Gradients.

J Vis Exp 2019 May 24(147). Epub 2019 May 24.

Department of Biomedical Engineering and Yale Systems Biology Institute, Yale University;

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http://dx.doi.org/10.3791/59226DOI Listing
May 2019

3S - Systematic, systemic, and systems biology and toxicology.

ALTEX 2018 ;35(2):139-162

Johns Hopkins University, Bloomberg School of Public Health, Center for Alternatives to Animal Testing (CAAT), Baltimore, MD, USA.

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http://dx.doi.org/10.14573/altex.1804051DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6696989PMC
October 2018

A Loss of Epigenetic Control Can Promote Cell Death through Reversing the Balance of Pathways in a Signaling Network.

Mol Cell 2018 10 20;72(1):60-70.e3. Epub 2018 Sep 20.

Yale Systems Biology Institute and Department of Biomedical Engineering, Yale University, New Haven, CT 06520, USA; Department of Biomedical Engineering, Johns Hopkins University School of Medicine and Whiting School of Engineering, Baltimore, MD 21205, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2018.08.025DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6219618PMC
October 2018

Self-induced mechanical stress can trigger biofilm formation in uropathogenic Escherichia coli.

Nat Commun 2018 10 5;9(1):4087. Epub 2018 Oct 5.

Department of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.

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http://www.nature.com/articles/s41467-018-06552-z
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http://dx.doi.org/10.1038/s41467-018-06552-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6173693PMC
October 2018

Topotaxis: A New Mechanism of Directed Cell Migration in Topographic ECM Gradients.

Biophys J 2018 03;114(6):1257-1263

Yale Systems Biology Institute and Department of Biomedical Engineering, Yale University, New Haven, Connecticut. Electronic address:

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http://dx.doi.org/10.1016/j.bpj.2017.11.3813DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5883610PMC
March 2018

A mathematical model coupling polarity signaling to cell adhesion explains diverse cell migration patterns.

PLoS Comput Biol 2017 05 4;13(5):e1005524. Epub 2017 May 4.

Department of Mathematics, University of British Columbia, Vancouver BC, Canada.

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http://dx.doi.org/10.1371/journal.pcbi.1005524DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5436877PMC
May 2017

Combined HMG-COA reductase and prenylation inhibition in treatment of CCM.

Proc Natl Acad Sci U S A 2017 05 12;114(21):5503-5508. Epub 2017 May 12.

Department of Neurosurgery, Yale School of Medicine, New Haven, CT 06520;

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http://dx.doi.org/10.1073/pnas.1702942114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5448170PMC
May 2017

Computation and measurement of cell decision making errors using single cell data.

PLoS Comput Biol 2017 04 5;13(4):e1005436. Epub 2017 Apr 5.

Center for Wireless Information Processing, Department of Electrical and Computer Engineering, New Jersey Institute of Technology, Newark, NJ, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1005436DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5397092PMC
April 2017

Single-cell dynamics and variability of MAPK activity in a yeast differentiation pathway.

Proc Natl Acad Sci U S A 2016 10 20;113(40):E5896-E5905. Epub 2016 Sep 20.

Department of Biomedical Engineering, School of Medicine, Johns Hopkins University, Baltimore, MD 21205; Yale Systems Biology Institute, Yale University, West Haven, CT 06516; Department of Biomedical Engineering, Yale University, New Haven, CT 06511;

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http://dx.doi.org/10.1073/pnas.1610081113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056058PMC
October 2016

Brain-on-a-chip model enables analysis of human neuronal differentiation and chemotaxis.

Lab Chip 2016 10;16(21):4152-4162

Department of Biomedical Engineering and Yale Systems Biology Institute, Yale University, New Haven, CT, USA.

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http://dx.doi.org/10.1039/c6lc00946hDOI Listing
October 2016

Directed migration of cancer cells guided by the graded texture of the underlying matrix.

Nat Mater 2016 07 14;15(7):792-801. Epub 2016 Mar 14.

Department of Biomedical Engineering, Yale University, New Haven, Connecticut 06520, USA.

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http://dx.doi.org/10.1038/nmat4586DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5517090PMC
July 2016

Two interferon-independent double-stranded RNA-induced host defense strategies suppress the common cold virus at warm temperature.

Proc Natl Acad Sci U S A 2016 07 11;113(30):8496-501. Epub 2016 Jul 11.

Department of Immunobiology, Yale University School of Medicine, New Haven, CT 06520; Howard Hughes Medical Institute, New Haven, CT 06520

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http://dx.doi.org/10.1073/pnas.1601942113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4968739PMC
July 2016

Migration Phenotype of Brain-Cancer Cells Predicts Patient Outcomes.

Cell Rep 2016 06 9;15(12):2616-24. Epub 2016 Jun 9.

Department of Biomedical Engineering and Yale Systems Biology Institute, Yale University, New Haven, CT 06516, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.05.042DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5517094PMC
June 2016

Role of spatial averaging in multicellular gradient sensing.

Phys Biol 2016 05 20;13(3):035004. Epub 2016 May 20.

Department of Physics, Emory University, Atlanta, GA 30322, USA.

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http://dx.doi.org/10.1088/1478-3975/13/3/035004DOI Listing
May 2016

Limits to the precision of gradient sensing with spatial communication and temporal integration.

Proc Natl Acad Sci U S A 2016 Feb 20;113(6):E689-95. Epub 2016 Jan 20.

Department of Physics, Emory University, Atlanta, GA 30322; Department of Biology, Emory University, Atlanta, GA 30322

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http://dx.doi.org/10.1073/pnas.1509597112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4760817PMC
February 2016

Cell-cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis.

Proc Natl Acad Sci U S A 2016 Feb 20;113(6):E679-88. Epub 2016 Jan 20.

Department of Biomedical Engineering and Yale Systems Biology Institute, Yale University, New Haven, CT 06520;

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http://dx.doi.org/10.1073/pnas.1516503113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4760786PMC
February 2016

Precisely parameterized experimental and computational models of tissue organization.

Integr Biol (Camb) 2016 Feb 29;8(2):230-242. Epub 2016 Jan 29.

Department of Biomedical Engineering and Yale Systems Biology Institute, Yale University, P.O. Box 208260, New Haven, CT, 06520, USA.

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http://dx.doi.org/10.1039/c5ib00270bDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4831076PMC
February 2016

Endothelial cells decode VEGF-mediated Ca2+ signaling patterns to produce distinct functional responses.

Sci Signal 2016 Feb 23;9(416):ra20. Epub 2016 Feb 23.

Yale Systems Biology Institute and Department of Biomedical Engineering, Yale University, 850 West Campus Drive, West Haven, CT 06516, USA.

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http://dx.doi.org/10.1126/scisignal.aad3188DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5301990PMC
February 2016

Real-time relationship between PKA biochemical signal network dynamics and increased action potential firing rate in heart pacemaker cells: Kinetics of PKA activation in heart pacemaker cells.

J Mol Cell Cardiol 2015 Sep 1;86:168-78. Epub 2015 Aug 1.

Laboratory of Cardiovascular Science, Biomedical Research Center Intramural Research Program, National Institute on Aging, NIH, Baltimore, MD, USA. Electronic address:

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http://dx.doi.org/10.1016/j.yjmcc.2015.07.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4558217PMC
September 2015

Interplay between chemotaxis and contact inhibition of locomotion determines exploratory cell migration.

Nat Commun 2015 Apr 8;6:6619. Epub 2015 Apr 8.

Department of Biomedical Engineering, School of Medicine, Johns Hopkins University, Baltimore, Maryland 21205, USA.

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http://dx.doi.org/10.1038/ncomms7619DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4391292PMC
April 2015

Spatial manipulation with microfluidics.

Front Bioeng Biotechnol 2015 8;3:39. Epub 2015 Apr 8.

Department of Biomedical Engineering, Systems Biology Institute, Yale University , West Haven, CT , USA.

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http://dx.doi.org/10.3389/fbioe.2015.00039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4389655PMC
April 2015

Noise decomposition of intracellular biochemical signaling networks using nonequivalent reporters.

Proc Natl Acad Sci U S A 2014 Dec 17;111(48):17330-5. Epub 2014 Nov 17.

Yale Systems Biology Institute and Department of Biomedical Engineering, Yale University, New Haven, CT 06520

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http://dx.doi.org/10.1073/pnas.1411932111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4260601PMC
December 2014

Glucose-6-phosphatase is a key metabolic regulator of glioblastoma invasion.

Mol Cancer Res 2014 Nov 7;12(11):1547-59. Epub 2014 Jul 7.

Department of Neurosurgery and Oncology, Johns Hopkins University School of Medicine, Baltimore, Maryland.

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http://dx.doi.org/10.1158/1541-7786.MCR-14-0106-TDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4233174PMC
November 2014

PHD3-mediated prolyl hydroxylation of nonmuscle actin impairs polymerization and cell motility.

Mol Biol Cell 2014 Sep 30;25(18):2788-96. Epub 2014 Jul 30.

Vascular Program, Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, MD 21205 Department of Biological Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD 21205 Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, MD 21205 McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205 Department of Pediatrics, Johns Hopkins University School of Medicine, Baltimore, MD 21205 Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205 Department of Radiation Oncology, Johns Hopkins University School of Medicine, Baltimore, MD 21205

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http://dx.doi.org/10.1091/mbc.E14-02-0775DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4161513PMC
September 2014

Concise review: Mechanotransduction via p190RhoGAP regulates a switch between cardiomyogenic and endothelial lineages in adult cardiac progenitors.

Stem Cells 2014 Aug;32(8):1999-2007

Department of Bioengineering, Institute of Stem Cells and Regenerative Medicine and Center for Cardiovascular Biology, University of Washington, Seattle, Washington, USA; Institute of Stem Cells and Regenerative Medicine and Center for Cardiovascular Biology, University of Washington, Seattle, Washington, USA.

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http://dx.doi.org/10.1002/stem.1700DOI Listing
August 2014

Cellular noise and information transmission.

Curr Opin Biotechnol 2014 Aug 9;28:156-64. Epub 2014 Jun 9.

Department of Physics, Emory University, Atlanta, GA 30322, USA; Department of Biology, Emory University, Atlanta, GA30322,USA.

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http://dx.doi.org/10.1016/j.copbio.2014.05.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5561739PMC
August 2014

Mesenchymal stem cells from human fat engineered to secrete BMP4 are nononcogenic, suppress brain cancer, and prolong survival.

Clin Cancer Res 2014 May;20(9):2375-87

Authors' Affiliations: Department of Neurosurgery and Oncology; Division of Pediatric Neurosurgery; Department of Molecular Microbiology and Immunology, Bloomberg School of Public Health; Department of Biomedical Engineering, Johns Hopkins University School of Medicine; Department of Neurosurgery, University of Maryland, Baltimore, Maryland; Department of Biomedical Engineering, Yale University, New Haven, Connecticut; Department of Neurosurgery, Jefferson Medical College, Philadelphia, Pennsylvania; and Department of Neurosurgery, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei, People's Republic of China.

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http://dx.doi.org/10.1158/1078-0432.CCR-13-1415DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4050066PMC
May 2014

Adaptive molecular networks controlling chemotactic migration: dynamic inputs and selection of the network architecture.

Philos Trans R Soc Lond B Biol Sci 2013 23;368(1629):20130117. Epub 2013 Sep 23.

Department of Biomedical Engineering, Institute for Cell Engineering, Johns Hopkins University, , Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1098/rstb.2013.0117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3785968PMC
April 2014

Spatial control of adult stem cell fate using nanotopographic cues.

Biomaterials 2014 Mar 31;35(8):2401-2410. Epub 2013 Dec 31.

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD.

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http://dx.doi.org/10.1016/j.biomaterials.2013.11.037DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4459500PMC
March 2014

Notch signaling mediates melanoma-endothelial cell communication and melanoma cell migration.

Pigment Cell Melanoma Res 2013 Sep 19;26(5):697-707. Epub 2013 Jul 19.

The Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins, The Johns Hopkins University School of Medicine, Baltimore, MD, USA.

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http://dx.doi.org/10.1111/pcmr.12131DOI Listing
September 2013

Modeling intercellular transfer of biomolecules through tunneling nanotubes.

Bull Math Biol 2013 Aug 16;75(8):1400-16. Epub 2013 Feb 16.

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21205, USA.

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http://dx.doi.org/10.1007/s11538-013-9819-4DOI Listing
August 2013

Superimposed topographic and chemical cues synergistically guide neurite outgrowth.

Lab Chip 2013 Aug;13(15):3070-81

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA.

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http://dx.doi.org/10.1039/c3lc50174dDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3820293PMC
August 2013

Chemically inducible diffusion trap at cilia reveals molecular sieve-like barrier.

Nat Chem Biol 2013 Jul 12;9(7):437-43. Epub 2013 May 12.

Department of Cell Biology, Center for Cell Dynamics, School of Medicine, Johns Hopkins University.

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http://dx.doi.org/10.1038/nchembio.1252DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3870470PMC
July 2013

Chaperone-mediated autophagy targets hypoxia-inducible factor-1α (HIF-1α) for lysosomal degradation.

J Biol Chem 2013 Apr 1;288(15):10703-14. Epub 2013 Mar 1.

Vascular Program, Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.

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http://dx.doi.org/10.1074/jbc.M112.414771DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3624450PMC
April 2013

A nontranscriptional role for HIF-1α as a direct inhibitor of DNA replication.

Sci Signal 2013 Feb 12;6(262):ra10. Epub 2013 Feb 12.

Vascular Program, Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

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http://dx.doi.org/10.1126/scisignal.2003417DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4124626PMC
February 2013

Stem cell differentiation as a renewal-reward process: predictions and validation in the colonic crypt.

Adv Exp Med Biol 2012 ;736:199-209

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

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http://link.springer.com/10.1007/978-1-4419-7210-1_11
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http://dx.doi.org/10.1007/978-1-4419-7210-1_11DOI Listing
January 2013

Cell motility of neural stem cells is reduced after SPIO-labeling, which is mitigated after exocytosis.

Magn Reson Med 2013 Jan 28;69(1):255-62. Epub 2012 Feb 28.

Russell H. Morgan Department of Radiology and Radiological Science, Division of MR Research, The Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.

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http://dx.doi.org/10.1002/mrm.24216DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3366052PMC
January 2013

Hypoxia-inducible factor-dependent breast cancer-mesenchymal stem cell bidirectional signaling promotes metastasis.

J Clin Invest 2013 Jan 17;123(1):189-205. Epub 2012 Dec 17.

Vascular Program, Johns Hopkins Institute for Cell Engineering, 733 North Broadway, Baltimore, Maryland 21205, USA.

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http://dx.doi.org/10.1172/JCI64993DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3533298PMC
January 2013

Synthetic spatially graded Rac activation drives cell polarization and movement.

Proc Natl Acad Sci U S A 2012 Dec 26;109(52):E3668-77. Epub 2012 Nov 26.

Department of Biomedical Engineering, Institute for Cell Engineering, Johns Hopkins University, Baltimore, MD 21205, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.1210295109
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http://dx.doi.org/10.1073/pnas.1210295109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3535611PMC
December 2012

Modelling cell polarization driven by synthetic spatially graded Rac activation.

PLoS Comput Biol 2012 21;8(6):e1002366. Epub 2012 Jun 21.

Department of Mathematics, University of British Columbia, Vancouver, British Columbia, Canada.

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https://dx.plos.org/10.1371/journal.pcbi.1002366
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http://dx.doi.org/10.1371/journal.pcbi.1002366DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3380869PMC
October 2012

Use of MR cell tracking to evaluate targeting of glial precursor cells to inflammatory tissue by exploiting the very late antigen-4 docking receptor.

Radiology 2012 Oct 24;265(1):175-85. Epub 2012 Aug 24.

Russell H. Morgan Department of Radiology and Radiological Science, Division of MR Research, Cellular Imaging Section and Vascular Biology Program, Institute for Cell Engineering, The Johns Hopkins University School of Medicine, 733 N Broadway, Broadway Research Building, Room 649, Baltimore, MD 21205, USA.

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http://dx.doi.org/10.1148/radiol.12112212DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3447172PMC
October 2012

Systems biology. How information theory handles cell signaling and uncertainty.

Science 2012 Oct;338(6105):334-5

Department of Biomedical Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1126/science.1227946DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3820285PMC
October 2012

Nanopatterned cardiac cell patches promote stem cell niche formation and myocardial regeneration.

Integr Biol (Camb) 2012 Sep 13;4(9):1019-33. Epub 2012 Aug 13.

Department of Bioengineering, University of Washington, Seattle, WA 98109, USA.

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http://dx.doi.org/10.1039/c2ib20067hDOI Listing
September 2012

Control of stem cell fate and function by engineering physical microenvironments.

Integr Biol (Camb) 2012 Sep;4(9):1008-18

Department of Bioengineering, University of Washington, Seattle, WA 98195, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3476065PMC
September 2012

Microfluidic technologies for studying synthetic circuits.

Curr Opin Chem Biol 2012 Aug 19;16(3-4):307-17. Epub 2012 May 19.

Department of Biomedical Engineering, Institue for Cell Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

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https://linkinghub.elsevier.com/retrieve/pii/S13675931120006
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http://dx.doi.org/10.1016/j.cbpa.2012.04.012DOI Listing
August 2012

The application of information theory to biochemical signaling systems.

Phys Biol 2012 Aug 7;9(4):045011. Epub 2012 Aug 7.

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1088/1478-3975/9/4/045011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3820280PMC
August 2012

Principles of model building: an experimentation-aided approach to development of models for signaling networks.

Methods Cell Biol 2012 ;110:1-17

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, USA.

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http://dx.doi.org/10.1016/B978-0-12-388403-9.00001-1DOI Listing
July 2012

Matrix rigidity controls endothelial differentiation and morphogenesis of cardiac precursors.

Sci Signal 2012 Jun 5;5(227):ra41. Epub 2012 Jun 5.

Department of Biomedical Engineering, Johns Hopkins Medical Institutions, Baltimore, MD 21205, USA.

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http://dx.doi.org/10.1126/scisignal.2003002DOI Listing
June 2012

Scp160-dependent mRNA trafficking mediates pheromone gradient sensing and chemotropism in yeast.

Cell Rep 2012 May 20;1(5):483-94. Epub 2012 Apr 20.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1016/j.celrep.2012.03.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3406329PMC
May 2012

Marginal zone B cells regulate antigen-specific T cell responses during infection.

J Immunol 2012 Apr 12;188(8):3961-71. Epub 2012 Mar 12.

Department of Molecular and Comparative Pathobiology, The Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.

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http://dx.doi.org/10.4049/jimmunol.1102880DOI Listing
April 2012

Matrix nanotopography as a regulator of cell function.

J Cell Biol 2012 Apr;197(3):351-60

Department of Bioengineering, University of Washington, Seattle, WA 98195, USA.

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http://www.jcb.org/lookup/doi/10.1083/jcb.201108062
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http://dx.doi.org/10.1083/jcb.201108062DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3341161PMC
April 2012

Quantitative analysis of the combined effect of substrate rigidity and topographic guidance on cell morphology.

IEEE Trans Nanobioscience 2012 Mar 8;11(1):28-36. Epub 2011 Sep 8.

Department of Biomedical Engineering and Institutefor Cell Engineering, Johns Hopkins University, Baltimore, MD 21218, USA. jpark145@ jhmi.edu

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http://dx.doi.org/10.1109/TNB.2011.2165728DOI Listing
March 2012

Diverse sensitivity thresholds in dynamic signaling responses by social amoebae.

Sci Signal 2012 Feb 28;5(213):ra17. Epub 2012 Feb 28.

Department of Biomedical Engineering, Johns Hopkins University, 3400 North Charles Street, Clark Hall Room 207, Baltimore, MD 21218, USA.

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http://stke.sciencemag.org/cgi/doi/10.1126/scisignal.2002449
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http://dx.doi.org/10.1126/scisignal.2002449DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5837804PMC
February 2012

Information transduction capacity of noisy biochemical signaling networks.

Science 2011 Oct 15;334(6054):354-8. Epub 2011 Sep 15.

Department of Biomedical Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1126/science.1204553DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3895446PMC
October 2011

Micro- and nanoengineering for stem cell biology: the promise with a caution.

Trends Biotechnol 2011 Aug 5;29(8):399-408. Epub 2011 May 5.

Department of Biomedical Engineering, The Johns Hopkins Medical Institutions, Baltimore, MD, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3726268PMC
August 2011

Integration of genotypic and phenotypic screening reveals molecular mediators of melanoma-stromal interaction.

Cancer Res 2011 Apr 15;71(7):2433-44. Epub 2011 Feb 15.

The Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins, Program in Cellular and Molecular Medicine, Department of Biomedical Engineering, Whitaker Institute for Biomedical Engineering, Institute for Cellular Engineering, and Department of Pathology, The Johns Hopkins University School of Medicine, Baltimore, Maryland, USA.

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http://cancerres.aacrjournals.org/cgi/doi/10.1158/0008-5472.
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http://dx.doi.org/10.1158/0008-5472.CAN-10-1875DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3070809PMC
April 2011

Engineering neuronal growth cones to promote axon regeneration over inhibitory molecules.

Proc Natl Acad Sci U S A 2011 Mar 7;108(12):5057-62. Epub 2011 Mar 7.

Department of Orthopedic Surgery, Johns Hopkins University, Baltimore, MD 21205, USA.

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http://dx.doi.org/10.1073/pnas.1011258108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3064397PMC
March 2011

Models at the single cell level.

Wiley Interdiscip Rev Syst Biol Med 2010 Jan-Feb;2(1):34-48

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1002/wsbm.49DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3895449PMC
January 2011

Signaling diversity of PKA achieved via a Ca2+-cAMP-PKA oscillatory circuit.

Nat Chem Biol 2011 Jan 21;7(1):34-40. Epub 2010 Nov 21.

Department of Pharmacology and Molecular Sciences, The Johns Hopkins University School of Medicine, Baltimore, Maryland, USA.

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http://dx.doi.org/10.1038/nchembio.478DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3073414PMC
January 2011

Oscillatory signaling processes: the how, the why and the where.

Curr Opin Genet Dev 2010 Dec;20(6):665-9

Department of Biomedical Engineering, Johns Hopkins University, 3400 N. Charles St., Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1016/j.gde.2010.08.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3895451PMC
December 2010

Biomimetic nanopatterns as enabling tools for analysis and control of live cells.

Adv Mater 2010 Nov;22(41):4551-66

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1002/adma.201000468DOI Listing
November 2010

An integrated micro-electro-fluidic and protein arraying system for parallel analysis of cell responses to controlled microenvironments.

Integr Biol (Camb) 2010 Sep 10;2(9):416-23. Epub 2010 Aug 10.

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, USA.

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http://dx.doi.org/10.1039/c0ib00017eDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3902009PMC
September 2010

Simple haptotactic gradient generation within a triangular microfluidic channel.

Lab Chip 2010 Aug 8;10(16):2130-8. Epub 2010 Jun 8.

Department of Mechanical Engineering, Sogang University, Sinsu-dong, Mapo-gu, Seoul, 121-742, Korea.

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August 2010

Lab-on-a-chip devices as an emerging platform for stem cell biology.

Lab Chip 2010 Aug 16;10(16):2019-31. Epub 2010 Jun 16.

Department of Biomedical Engineering, The Johns Hopkins University, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1039/c004689bDOI Listing
August 2010

High-content screening in microfluidic devices.

Expert Opin Drug Discov 2010 Aug;5(8):715-20

Johns Hopkins University, Department of Biomedical Engineering, 3400 N. Charles St., Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1517/17460441.2010.495116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3156449PMC
August 2010

Subcellular-resolution delivery of a cytokine through precisely manipulated nanowires.

Nat Nanotechnol 2010 Jul 13;5(7):545-51. Epub 2010 Jun 13.

Department of Materials Science and Engineering, Johns Hopkins University, 3400 N. Charles Street, Baltimore, Maryland 21218, USA.

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http://dx.doi.org/10.1038/nnano.2010.104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3118461PMC
July 2010

A cell-based model for quorum sensing in heterogeneous bacterial colonies.

PLoS Comput Biol 2010 Jun 17;6(6):e1000819. Epub 2010 Jun 17.

Computational Biology and Biological Physics, Department of Astronomy and Theoretical Physics, Lund University, Lund, Sweden.

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http://dx.plos.org/10.1371/journal.pcbi.1000819
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2887461PMC
June 2010

Visualization of JNK activity dynamics with a genetically encoded fluorescent biosensor.

Proc Natl Acad Sci U S A 2010 Mar 8;107(12):5459-64. Epub 2010 Mar 8.

Department of Pharmacology and Molecular Sciences, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2851826PMC
March 2010

Nanoscale cues regulate the structure and function of macroscopic cardiac tissue constructs.

Proc Natl Acad Sci U S A 2010 Jan 16;107(2):565-70. Epub 2009 Dec 16.

Department of Biomedical Engineering and Institute for Cell Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1073/pnas.0906504107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2818944PMC
January 2010

Synergistic effect of HIF-1alpha gene therapy and HIF-1-activated bone marrow-derived angiogenic cells in a mouse model of limb ischemia.

Proc Natl Acad Sci U S A 2009 Dec 30;106(48):20399-404. Epub 2009 Nov 30.

Vascular Program, Institute for Cell Engineering, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.0911921106
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2787122PMC
December 2009

Microengineered platforms for cell mechanobiology.

Annu Rev Biomed Eng 2009 ;11:203-33

Department of Biomedical Engineering, The Johns Hopkins University, Baltimore, Maryland 21218, USA.

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http://dx.doi.org/10.1146/annurev-bioeng-061008-124915DOI Listing
October 2009

Mechanosensitivity of fibroblast cell shape and movement to anisotropic substratum topography gradients.

Biomaterials 2009 Oct;30(29):5433-44

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1016/j.biomaterials.2009.06.042DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2728798PMC
October 2009

Computational model and microfluidic platform for the investigation of paracrine and autocrine signaling in mouse embryonic stem cells.

Mol Biosyst 2009 Sep 2;5(9):1004-12. Epub 2009 Jul 2.

Department of Biomedical Engineering, Johns Hopkins University School of Engineering, Clark Hall 208C, 3400 North Charles Street, Baltimore, MD 21218, USA.

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September 2009

Using a microfluidic device for high-content analysis of cell signaling.

Sci Signal 2009 Jun 16;2(75):pl2. Epub 2009 Jun 16.

Department of Biomedical Engineering and Whitaker Institute of Biomedical Engineering and Institute for Cell Engineering, The Johns Hopkins University, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1126/scisignal.275pl2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3918417PMC
June 2009

Microfluidics technology for systems biology research.

Methods Mol Biol 2009 ;500:203-19

Whitaker Institute for Biomedical Engineering, Institute for Cell Engineering, Department of Biomedical Engineering, John Hopkins University, Baltimore, MD, USA.

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http://dx.doi.org/10.1007/978-1-59745-525-1_7DOI Listing
May 2009

Fine temporal control of the medium gas content and acidity and on-chip generation of series of oxygen concentrations for cell cultures.

Lab Chip 2009 Apr 17;9(8):1073-84. Epub 2009 Feb 17.

Department of Physics, University of California, San Diego, , 9500 Gilman Drive, MC 0374, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1039/b816191gDOI Listing
April 2009

High content cell screening in a microfluidic device.

Mol Cell Proteomics 2009 Mar 24;8(3):433-42. Epub 2008 Oct 24.

Department of Biomedical Engineering, The Johns Hopkins University, Baltimore, Maryland 21218, USA.

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http://dx.doi.org/10.1074/mcp.M800291-MCP200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2649807PMC
March 2009

Analysis of pairwise cell interactions using an integrated dielectrophoretic-microfluidic system.

Mol Syst Biol 2008 16;4:232. Epub 2008 Dec 16.

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1038/msb.2008.69DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2615303PMC
March 2009

Robust and sensitive control of a quorum-sensing circuit by two interlocked feedback loops.

Mol Syst Biol 2008 16;4:234. Epub 2008 Dec 16.

Department of Biological Sciences, Virginia Tech, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1038/msb.2008.70DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2615304PMC
March 2009

Physical transfer of membrane and cytoplasmic components as a general mechanism of cell-cell communication.

J Cell Sci 2009 Mar 10;122(Pt 5):600-10. Epub 2009 Feb 10.

Department of Biomedical Engineering, Johns Hopkins University, School of Medicine, Baltimore, MD 21205, USA.

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http://dx.doi.org/10.1242/jcs.031427DOI Listing
March 2009

A new link between epigenetic progenitor lesions in cancer and the dynamics of signal transduction.

Cell Cycle 2009 Feb 3;8(3):383-90. Epub 2009 Feb 3.

Department of Medicine, Center for Epigenetics, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.

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http://dx.doi.org/10.4161/cc.8.3.7542DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6275123PMC
February 2009

Guided Cell Migration on Microtextured Substrates with Variable Local Density and Anisotropy.

Adv Funct Mater 2009 Feb;19(10):1579-1586

Department of Biomedical Engineering Johns Hopkins University Baltimore, MD 21218 (USA).

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http://dx.doi.org/10.1002/adfm.200990041DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2799118PMC
February 2009

A method for probabilistic mapping between protein structure and function taxonomies through cross training.

BMC Struct Biol 2008 Oct 3;8:40. Epub 2008 Oct 3.

The Whitaker Institute for Biomedical Engineering, Johns Hopkins School of Medicine, Baltimore, MD, USA.

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http://dx.doi.org/10.1186/1472-6807-8-40DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2573881PMC
October 2008

Pulsing cells: how fast is too fast?

HFSP J 2008 Oct 26;2(5):251-6. Epub 2008 Aug 26.

Department of Biomedical Engineering, The Johns Hopkins University, Baltimore, Maryland 21218.

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https://www.tandfonline.com/doi/full/10.2976/1.2969901
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2639942PMC
October 2008

Understanding NF-kappaB signaling via mathematical modeling.

Mol Syst Biol 2008 6;4:192. Epub 2008 May 6.

Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21208, USA.

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http://dx.doi.org/10.1038/msb.2008.30DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2424295PMC
July 2008

Wires in the soup: quantitative models of cell signaling.

Trends Cell Biol 2008 Mar 21;18(3):112-8. Epub 2008 Feb 21.

Whitaker Institute for Biomedical Engineering, Institute for Cell Engineering, Department of Biomedical Engineering, Johns Hopkins University, 208C Clark Hall, 3400 North Charles Street, Baltimore, MD 21218, USA.

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http://dx.doi.org/10.1016/j.tcb.2008.01.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3895447PMC
March 2008