Regeneration

Cellular Signaling Pathways as Plastic, Proto-cognitive Systems: Implications for Biomedicine
Mathews, J., Chang, J., Devlin, L., and Levin, M. (2023)
Patterns, 4: 100737

Studying Protista WBR and Repair Using Physarum polycephalum
Sperry, M. M., Murugan, N. J., and Levin, M. (2022)
in S. Blanchoud and B. Galliot (Eds.), Whole-Body Regeneration: Methods in Molecular Biology, 2450: 51-67

Acute multidrug delivery via a wearable bioreactor facilitates long-term limb regeneration and functional recovery in adult Xenopus laevis
Murugan, N. J., Vigran, H. J., Miller, K., Golding, A., Pham, Q. L., Sperry, M., Rasmussen-Ivey, C., Kane, A. W., Kaplan, D. L., and Levin, M. (2022)
Science Advances, 8(4): abj2164

Inducing Vertebrate Limb Regeneration: A Review of Past Advances and Future Outlook
Davidian, D., and Levin, M. (2021)
Cold Spring Harbor Perspectives in Biology, doi:10.1101/cshperspect.a040782

A Comprehensive Conceptual and Computational Dynamics Framework for Autonomous Regeneration Systems
Minh-Thai, T. N., Samarasinghe, S., and Levin, M. (2021)
Artificial Life, 27(2): 80-104

Nervous System and Tissue Polarity Dynamically Adapt to New Morphologies in Planaria
Bischof, J., Day, M., Miller, K., LaPalme, J., and Levin, M. (2020)
Developmental Biology, 467(1-2): 51-65

von Willebrand factor D and EGF domains is an evolutionarily conserved and required feature of blastemas capable of multitissue appendage regeneration
Leigh, N. D., Sessa, S., Dragalzew, A. C., Payzin‐Dogru, D., Sousa, J. F., Aggouras, A. N., Johnson, K., Dunlap, G. S., Haas, B. J., Levin, M., Schneider, I., Whited, J. L., (2020), ,
Evolution & Development, 22(4): 297-311

Precise control of ion channel and gap junction expression is required for patterning of the regenerating axolotl limb
Sousounis, K., Erdogan, B., Levin, M., and Whited, J. (2020)
International Journal of Developmental Biology, 64(10-11-12): 485-494

Eya2 promotes cell cycle progression by regulating DNA damage response during vertebrate limb regeneration
Sousounis, K., Bryant, D. M., Fernandez, J. M., Eddy, S. S., Tsai, S. L., Gundberg, G. C., Han, J., Courtemanche, K., Levin, M., and Whited, J. L. (2020)
eLIFE, 9: e51217

Does regeneration recapitulate phylogeny?
Fields, C., and Levin, M. (2020)
Communicative & Integrative Biology, 13(1): 27-38

Neural control of body-plan axis in regenerating planaria
Pietak, A., Bischof, J., LaPalme, J., Morokuma, J., and Levin, M. (2019)
PLOS Computational Biology, 15(4): e1006904

Brief Local Application of Progesterone via a Wearable Bioreactor Induces Long-Term Regenerative Response in Adult Xenopus Hindlimb
Herrera-Rincon, C., Golding, A. S., Moran, K. M., Harrison, C., Martyniuk, C. J., Guay, J. A., Zaltsman, J., Carabello, H., Kaplan, D. L., and Levin, M. (2018)
Cell Reports, 25(6): 1593-1609

Ivermectin promotes peripheral nerve regeneration during wound healing
Cairns, D. M., Giordano, J. E., Conte, S., Levin, M., and Kaplan, D. L. (2018)
ACS Omega, 3(10): 12392-12402

Cross-limb Communication During Xenopus Hind-limb Regenerative Response: Non-Local Bioelectric Injury Signals
Busse, S. M., McMillen, P. T., and Levin, M. (2018)
Development, 145(19): dev164210

Bioelectric Signaling in Regeneration: Mechanisms of Ionic Controls of Growth and Form
McLaughlin, K. A., and Levin, M. (2017)
Developmental Biology, 433(2): 177-189

Repeated removal of developing limb buds permanently reduces appendage size in the highly-regenerative axolotl
Bryant, D. M., Sousounis, K., Farkas, J. E., Bryant, S., Thao, N., Guzikowski, A. R., Monaghan, J. R., Levin, M., and Whited, J. L. (2017)
Developmental Biology, 424(1): 1-9

Long-Term, Stochastic Editing of Regenerative Anatomy via Targeting Endogenous Bioelectric Gradients
Durant, F., Morokuma, J., Fields, C., Williams, K., Adams, D. S., and Levin, M. (2017)
Biophysical Journal, 112(10): 2231-2243

Modeling regenerative processes with Membrane Computing
Garcia-Quismondo, M., Levin, M., and Lobo, D. (2017)
Information Sciences, 381: 229-249

Computing a worm: reverse-engineering planarian regeneration
Lobo, D., and Levin, M. (2017)
in Adamatzky, A. (Ed), Advances in Unconventional Computing. Emergence, Complexity and Computation, vol 23, Springer: Cham, pp. 637-654

A Computational Model of Planarian Regeneration
De, A., Chakravarthy, V. S., and Levin, M. (2017)
International Journal of Parallel, Emergent, and Distributed Systems, 32(4): 331-347

Vertically and horizontally-transmitted memories – the fading boundaries between regeneration and inheritance in planaria
Neuhof, M., Levin, M., and Rechavi, O. (2016)
Biology Open, 5(9): 1177-1188

Dynamic structure discovery and repair for 3D cell assemblages
Ferreira, G. B. S., Smiley, M., Scheutz, M., and Levin, M. (2016)
Proceedings of the Fifteenth International Conference on the Synthesis and Simulation of Living Systems (ALIFEXV), pp. 352-359

A Level Set Approach to Simulating Xenopus laevis Tail Regeneration
Serlin, Z., Rife, J., and Levin, M. (2016)
Proceedings of the Fifteenth International Conference on the Synthesis and Simulation of Living Systems (ALIFEXV), pp. 528-535

Exploring Instructive Physiological Signaling with the Bioelectric Tissue Simulation Engine (BETSE)
Pietak, A., and Levin, M. (2016)
Frontiers in Bioengineering and Biotechnology, 4: 55

Genome-wide analysis reveals conserved transcriptional responses downstream of resting potential change in Xenopus embryos, axolotl regeneration, and human mesenchymal cell differentiation
Pai, V. P., Martyniuk, C. J., Echeverri, K., Sundelacruz, S., Kaplan, D. L., and Levin, M. (2016)
Regeneration, 3(1): 3-25

A Tunable Silk Hydrogel Device for Studying Limb Regeneration in Adult Xenopus laevis
Golding, A., Guay, J. A., Herrera-Rincon, C., Levin, M., and Kaplan, D. L. (2016)
PLoS One, 11(6): e0155618

Physiological Inputs Regulate Species-Specific Anatomy During Embryogenesis And Regeneration
Sullivan, K. G., Emmons-Bell, M., and Levin, M. (2016)
Communicative & Integrative Biology, 9(4): e1192733

Computational discovery and in vivo validation of hnf4 as a regulatory gene in planarian re-generation
Lobo, D., Morokuma, J., and Levin, M. (2016)
Bioinformatics, 32(17): 2681-2685

Physiological controls of large-scale patterning in planarian regeneration: a molecular and computational perspective on growth and form
Durant, F., Lobo, D., Hammelman, J., and Levin, M. (2016)
Regeneration, 3(2): 78-102

Artificial neural networks as models of robustness in development and regeneration: stability of memory during morphological remodeling
Hammelman, J., Lobo, D., and Levin, M. (2016)
in S. Shanmuganathan and S. Samarasinghe (Eds.), Artificial Neural Network (ANN) Modeling, vol. 628, pp. 45-65

Gap junctional blockade stochastically induces different species-specific head anatomies in genetically wild-type Girardia dorotocephala flatworms
Emmons-Bell, M., Durant, F., Hammelman, J., Bessonov, N., Volpert, V., Morokuma, J., Pinet, K., Adams, D. S., Pietak, A., Lobo, D., and Levin, M. (2015)
International Journal of Molecular Sciences, 16(11): 27865-27896

Re-membering the body: applications of computational neuroscience to the top-down control of regeneration of limbs and other complex organs
Pezzulo, G., and Levin, M. (2015)
Integrative Biology, 7(12): 1487-1517

Target morphology and cell memory: a model of regenerative pattern formation
Bessonov, N., Levin, M., Morozova, N., Reinberg, N., Tosenberger, A., and Volpert, V. (2015)
Neural Regeneration Research, 10(12): 1901-1905

The stability of memories during brain remodeling: A perspective
Blackiston, D. J., Shomrat, T., and Levin, M. (2015)
Communicative & Integrative Biology, 8(5): e1073424

Inferring regulatory networks from experimental morphological phenotypes: a computational method reverse-engineers planarian regeneration
Lobo, D., and Levin, M. (2015)
PLoS Computational Biology, 11(6): e1004295

A conceptual model of morphogenesis and regeneration
Tosenberger, A., Bessonov, N., Levin, M., Reinberg, N., Volpert, V., and Morozova, N. (2015)
Acta Biotheoretica, 63(3): 283-294

Knowing one's place: a free energy approach to pattern regulation
Friston, K., Levin, M., Sengupta B., and Pezzulo, G. (2015)
Journal of the Royal Society Interface, 12(105): 20141383

Limbform: a functional ontology-based database of limb regeneration experiments
Lobo, D., Feldman, E. B., Shah, M., Malone, T. J., and Levin, M. (2014)
Bioinformatics, 30(24): 3598-3600

A bioinformatics expert system linking functional data to anatomical outcomes in limb regeneration
Lobo, D., Feldman, E. B., Shah, M., Malone, T., and Levin, M. (2014)
Regeneration, 1(2): 37-56

Endogenous bioelectrical networks store non-genetic patterning information during development and regeneration
Levin, M. (2014)
Journal of Physiology, 592(11): 2295-2305

A linear-encoding model explains the variability of the target morphology in regeneration
Lobo, D., Solano, M., Bubenik, G. A., and Levin, M. (2014)
Journal of the Royal Society Interface, 11(92): 20130918

Planform: an application and database of graph-encoded planarian regenerative experiments
Lobo, D., Malone, T. J., and Levin, M. (2013)
Bioinformatics, 29(8): 1098-1100

Light-activation of the Archaerhodopsin H+ pump reverses age-dependent loss of vertebrate regeneration: sparking system-level controls in vivo
Adams, D. S., Tseng, A-S. and M. Levin (2013)
Biology Open, 2(3): 306-313

Bioelectric signaling regulates head and organ size during planarian regeneration
Beane, W. S., Morokuma, J., Lemire, J. M., and Levin, M. (2013)
Development, 140(2): 313-322

Transducing bioelectrical signals into epigenetic pathways during tadpole tail regeneration
Tseng, A.-S., and Levin, M. (2012)
Anatomical Record, 295(10): 1541-1551

Morphogenetic fields in embryogenesis, regeneration, and cancer: non-local control of complex patterning
Levin, M. (2012)
BioSystems, 109(3): 243-261

Inhibition of planar cell polarity extends neural growth during regeneration, homeostasis, and development
Beane, W. S., Tseng, A.-S., Morokuma, J. M., Lemire, J. M., and Levin, M. (2012)
Stem Cells and Development, 21(12): 2085-2094

Modeling planarian regeneration: a primer for reverse-engineering the worm
Lobo, D., Beane, W., and Levin, M. (2012)
PLoS Computational Biology, 8(4): e1002481

A chemical genetics approach reveals H,K-ATPase-mediated membrane voltage is required for planarian head regeneration
Beane, W. S., Morokuma, J., Adams, D. S., and Levin, M. (2011)
Chemistry & Biology, 18(1): 77-89

Induction of vertebrate regeneration by a transient sodium current
Tseng, A-S., Beane, W. S., Lemire, J. M., Masi, A., and Levin, M. (2010)
Journal of Neuroscience, 30(39): 13192-13200

BioDome regenerative sleeve for biochemical and biophysical stimulation of tissue regeneration
Hechavarria, D., Dewilde, A., Braunhut, S., Levin, M., and Kaplan, D. K. (2010)
Medical Engineering and Physics, 32(9): 1065-1073

Bioelectric mechanisms in regeneration: Unique aspects and future perspectives
Levin, M. (2009)
Seminars in Cell and Developmental Biology, 20(5): 543-556

Errors of Geometry: regeneration in a broader perspective
Levin, M. (2009)
Seminars in Cell and Developmental Biology, 20(6): 643-645

Regeneration: recent advances, major puzzles, and biomedical opportunities
Levin, M. (2009)
Seminars in Cell and Developmental Biology, 20(5): 515-516

Planarian PTEN homologs regulate stem cells and regeneration through TOR signaling
Oviedo, N. J., Pearson, B. J., Levin, M., and Alvarado, A. S. (2008)
Disease Models and Mechanisms, 1(2-3): 131-143

The planarian regeneration model as a context for the study of drug effects and mechanisms
Oviedo, N., and Levin, M. (2008)
in R. B. Raffa & S. M. Rawls (Eds.), Planaria: A Model for Drug Action and Abuse, RG Landes Co.: Austin, pp. 95-104

Planarians: a versatile and powerful model system for molecular studies of regeneration, adult stem cell regulation, aging, and behavior
Oviedo, N., Nicolas, C. L., Adams, D. S., and Levin, M. (2008)
Cold Spring Harbor Protocols, 3(10): pdb.em0101

Tail regeneration in Xenopus laevis as a model for understanding tissue repair
Tseng, A-S., and Levin, M. (2008)
Journal of Dental Research, 87(9): 806-816

Apoptosis is required during early stages of tail regeneration in Xenopus laevis
Tseng, A-S., Adams, D. S., Qiu, D., Koustubhan, P., and Levin, M. (2007)
Developmental Biology, 301(1): 62-69

H+ Pump-dependent changes in membrane voltage are an early mechanism necessary and sufficient to induce Xenopus tail regeneration
Adams, D. S., Masi, A., and Levin, M. (2007)
Development, 134(7): 1323-1335

smedxin-11 is a Planarian Stem Cell Gap Junction Gene Required for Regeneration and Homeostasis
Oviedo, N. J., and Levin, M. (2007)
Development, 134(17): 3121-3131

Large-Scale Biophysics: Ion Flows and Regeneration
Levin, M. (2007)
Trends in Cell Biology, 17(6): 261-270

What lies at the interface of regenerative medicine and developmental biology?
Ingber, D., and Levin, M. (2007)
Development, 134(14): 2541-2547