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CURRICULUM VITAE

Panagiotis Antonios Tsonis, Ph.D.

Date of Birth: May 13, 1953

Business Address: Department of Biology The University of Dayton Dayton, OH 45469 (937)-229-2579

E-mail: [email protected]

Web site: http://udbiology.com/content.php?id=1131

Academic Studies and Positions:

6/71 Graduated, 8th High School of ,

10/72 - 6/76 Patras University Biological Department, Patras, Greece. B.Sc. in February 1977

4/77 - 3/78 Research Student Scholarship from the Japanese Government, Institute of , Faculty of Science, Nagoya University.

4/78 - 3/80 Graduate Student Scholarship, Masters Course, Institute of Molecular Biology, Nagoya University. Master's Thesis: Effects of Carcinogens on Regenerating and Non-Regeneration Limbs in Adult Newts. Supervisor: Professor Goro Eguchi. M.Sc. received March 1980

4/80 - 3/83 Graduate Student Scholarship, Doctoral course, Institute of Molecular Biology, Nagoya University. Doctoral Thesis: (continuing from the Master's course) Effects of Carcinogens on Regenerating and Non-Regenerating Limbs in Adult Newts. Supervisor: Professor Goro Eguchi. Ph.D. degree received March 1983. The first Greek Citizen to receive a Ph.D. degree from a (former) Japanese Imperial University

8/83 - 10/84 Postdoctoral Fellow, Immunology Department, Scripps Clinic and Research Foundation. Molecular biology of systemic lupus erythematosus.

11/84 - 6/87 Postdoctoral Fellow, La Jolla Cancer Research Foundation. Molecular biology of cartilage.

5/86 - 8/88 Adjunct Faculty Member, National University, San Diego, CA. Teaching responsibilities included courses in Human Anatomy and Physiology and General Biology.

6/87 - 8/88 Research Associate (Assistant Professor rank), La Jolla cancer Research Foundation Molecular biology of limb development.

7/88 - 12/92 Adjunct Professor of Biology, San Diego State University.

9/88 - 8/89 Assistant Professor of Medicine, Department of Medicine, Indiana University. Secondary appointment at the Department of Biophysics and Physiology. Molecular Biology of limb regeneration and development.

9/89 - 12/92 Assistant Professor of Molecular Biology, Department of Biology, The University of Dayton. Molecular Biology of limb and eye regeneration and development. Courses taught: Introductory Biology; Molecular Biology (undergraduate and graduate).

1/93 - 12/96 Associate Professor (with tenure), Department of Biology, University of Dayton.

1/97-present Full Professor

7/02-7/06 Leonard A. Mann, S.M., Chair in the Sciences

3/06-present Director, Center for Tissue Regeneration and Engineering at Dayton (TREND).

1/11-present Adjunct Professor, The Sanford Burnham Medical Research Institute.

Grants

A six-year scholarship for graduate studies sponsored by the Japanese Government (1977-1983).

Recipient of the Allied-Signal award in Osteoarthritis (Arthritis Foundation Arthritis Investigator Award) 1987-1990. Award of US $108,000 for 3 years, to conduct research on the identification and characterization of cartilage-specific gene promoter.

New Faculty award, Indiana University School of Medicine, amount of $22,000 for one year, 1989

Research Council grant, University of Dayton, amount of $14,000 for one year, 1990

NIH First Award, $500,000 for 5 years; April 1, 1990-March 31, 1995. "Role of vitamin D in chondrogenesis".

Research Council grant, University of Dayton, amount of $11,000 for one year, 1991

Fund for Educational Development, University of Dayton, amount of $2,500 for one year, 1991

Research Council grant, University of Dayton, amount of $5,000 for one year, 1992

Grant from the Ohio Supercomputer Center, 1992

NSF grant for the organization of the 32nd Midwest Regional Conference

National Kidney Foundation of Ohio grant, $5,000 for one year, 1992-1993

NIH: Gene regulation in lens regeneration (Total cost: $343,855). For three years, 9/1/95- 8/30/98

Arthritis Foundation: Role of Hox genes in chondrogenesis (Total cost: $105,000). For three years, 7/1/95-6/30/98

Research Council Grant, University of Dayton, amount of $6,900 for one year, 1995

NIH: Gene regulation in lens regeneration (renewed for 4 years; total cost $700,000), 4/1/99-3/31/03).

NIH: Gene regulation in lens regeneration (renewed for 5 years; total cost $1,100,000, 5/1/2004-4/30/09).

Wright Center for Innovation (WCI) grant from the State of Ohio. A total of nearly $5,000.000 for UD, for equipment. My part: $600,000

A Wright State University contract to study hair cell regeneration; amount of $150,000 for three years (3/1/06-3/1/09)

Seed funds from the University of Dayton to establish the Center for Tissue Regeneration and Engineering; amount of $200,000 for two years (1/1/06-12/31/08)

NIH: Gene discovery in mouse models for secondary cataracts. Total cost $1,700,000 for five years; 9-09-2008 to 8-2013

NIH: Gene regulation in lens regeneration. Renewed for 5 years. Total cost $1.800,000; 8- 1-2009 to 7-31-2014 (extended to 2015).

Awards Recipient, Outstanding Engineers and Scientists Award from the Affiliate Societies Council, Dayton, OH. 1994

Recipient, The George B. Nonald Award for Research from The Sigma-Xi Society of the University of Dayton, 1996

Recipient, 1996 Outstanding Scholarship Award, Arts and Sciences, University of Dayton

Recipient, 1998 Alumni Award in Scholarship, University of Dayton

Honorary Diploma, of , Greece, 2006

Distinction, Scientific Association of the Hellenic Medical students, 2008

Recipient, The George B. Nonald Award for Research from The Sigma-Xi Society of the University of Dayton, 2012

STARS Award, Office for Research, University of Dayton, 2012

Memberships Society for Developmental Biology, USA Protein Society, USA (1988-1991) American Society for Bone and Mineral Research (1989-1990) ARVO (1998-present)

Editorial Boards In Vivo 1989 - 2009 Trends in Biochemical Sciences 7/1987 -3/1993 (Journal Club Correspondent) Oncology Reports 9/1993-1996 Experimental Eye Research (Executive Editor) 7/2003- 2010 Wound Repair & Regeneration 1/1/2004-present Books Editor, Human 5/1/2009-present PLoS ONE 10/2012-present Regeneration 2013-present

Committee Member Medical and Scientific Committee, Arthritis Foundation, Southwestern Ohio Chapter, 3/1991-2000

Organizer 32nd and 33rd Annual Midwest Regional Developmental Biology meeting for two years (1992 & 1993) Lens section organizer, ICER 2004, Sydney, Australia EMBO Conference: Molecular & Cellular Basis of Regeneration & Tissue Repair, October 2008, Palma de Mallorca, Spain

Invited Speaker (111)

Department of Biology, San Diego State University Medical Science Program, Indiana University, Bloomington (1989) Department of Medicine, Indiana University (1989) Center for Biotechnology, UNAM, Cuernavaca, Mexico (1990) Polytechnic School, UNAM, Mexico City (1990) Hipple Cancer Center, Dayton, OH Department of Zoology, Miami University Department of Biology, University of Toledo Department of Anatomy and , University of Cincinnati La Jolla Cancer Research Foundation Research Institute of City of Hope Museum for Natural History, Dayton, OH Department of Molecular Genetics, Ohio State University Research Center Demokritus, Athens, Greece Fourth International Conference, Anticancer Research (section chair) Center for Biotechnology, UNAM, Cuernavaca, Mexico Okazaki, Japan, 33rd NIBB Conference (section chair) Department of Pathology, University of Pennslylvania FASEB, 1994 Summer Research Conference, Saxton's River, VT Okazaki, Japan, 35th NIBB Conference University of Xanthi, Greece Center for Biotechnology, UNAM, Cuernavaca, Mexico Umea University, Sweden (1996) , Greece XII International Congress of Eye Research, Yokohama, Japan (1996) Okazaki, Japan, 37th NIBB Conference NIH (Eye Institute) Ohio Vision Research Symposium, Cleveland, OH XIII International Congress of Eye Research, , France (symposium chair)(1998) Kumamoto University, Japan XIV International Congress of Eye Research, Santa Fe, NM (2000) Euresco Conference: Cellular and Molecular Basis of Regeneration, Castelvecchio Pascoli, Italy (2002) XV International Congress of Eye Research, Geneva, Switzerland (2002) Medical University of South Carolina (2003) Regenerative Biology and Medicine Conference, Indiana University (2003) Gordon Conference on Tissue Repair and Regeneration, Barga, Italy (2003) SUNY Stony Brook, Dept. of Physiology and Biophysics (2003) 7th Great Lakes Vision Research Conference, Oxford, Ohio (2003) Department of Biology, IUPUI, Indianapolis, IN (2003) ARVO 2004, Ft. Lauderdale, FL University of Colorado HSC, School of Pharmacy (2004) Juan March Conference of Eye Development and Evolution, , Spain (2004). XVI International Congress of Eye Research, Sydney, Australia (2004). Lens Section Organizer University of California at Berkeley, School of Optometry (2004) Experimental Biology-AAA, San Diego, CA (2005) 2nd Int. Tissue Engineering Conference, , Greece (2005) Complement, animal models and diseases, Rhodes, Greece (2005) 42nd Workshop on Inner Ear Biology, Tubingen, Germany (2005) ARVO WERC, Regenerative Ocular Biology, Laguna Beach; session organizer (2005) Department of Biological Sciences, Wright State University (2005) Winter meeting of the Anatomical Society of Great Britain and Ireland, Oxford (2006) Research Institute of the Academy of Athens, Greece (2006) Guest lecturer, of University of Athens, Greece (2006) Tokyo Medical and Dental School (2006) The Forsyth Institute, Harvard Medical School (2006) Wright-Patterson Air Force Base, Dayton (2006) Ohio Academy of Sciences Meeting, Dayton (2006) University College London (2006) 3rd Conference on Regeneration (EMBO Series), Ascona, Switzerland (2006) Baylor Medical College (2006) XVII International Congress for Eye Research, Buenos Aires, Argentina (2006). Symposium co-chair University of Buenos Aires Medical School, Argentina (2006) Tohoku University, Sendai, Japan (2007) The Salk Institute for Biological Research (2007) Miami University, Ohio (2007) 13th Conference of Greek Medical Students and 1st International Forum (Keynote Speaker), Athens, Greece (2007) 2nd Conference of Bioscience, University of Patras, Patras, Greece (2007) Wallace-Kettering Institute, Dayton (2007) 4th Complement Conference, Greece (2007) Pacific Ocular Regenerative Biology Conference XII, Laguna Beach (2007). Session co- chair Kettering College of medical Arts, Dayton, OH (2007) Wright State University-Neuroscience (2008) National Research Foundation, Athens, Greece (2008) University of Pennsylvania Medical School (2008) 14th Conference of Greek Medical Students and 2nd International Forum (Opening Ceremony Speaker), Athens, Greece (2008) Advances in Tissue Engineering, Rice University (2008) 18th International Congress for Eye Research, Beijing, China (2008), Symposium co-chair EMBO Conference: Molecular and Cellular Basis of Regeneration and Tissue Repair, Co- organizer, Palma de Mallorca, Spain (2008) University of Florida, Gainesville (2008) Cole Eye Institute, Cleveland Clinic (2008) Department of Genetics, Case Western Reserve University (2008) The Regeneration Project, University of Florida (2009) Department of Biomedical Engineering, Ohio State University (2009) 7th International Conference on Pathways, Networks and Systems Medicine, , Greece (2009), Speaker and session Chair 1st Retinal Diseases and Complement Conference, Crete, Greece (2009), Speaker Advances in Tissue Engineering, Rice University (2009) Burnham Institute for Medical Research, La Jolla, CA (2009) Department of Biological Structure, University of Washington, Seattle (2009) Great lakes Vision Research Conference (2009) Interdisciplinary Workshop on Pattern Formation in Morphogenesis, Institut des Hautes Etudes Scientifique, Paris, France (2010) The Eye Institute, University of Ottawa, Ottawa, Canada (2010) 19th International Congress for Eye Research, Montreal, Canada (2010), Symposium co- chair Concepts and Model Organisms in Regenerative Biology (LASDB and SDB) Universidad Catolica de Chile, Santiago, Chile (2010) The 5th International meeting of the American Society for Developmental Biology, Santa Cruz, Chile (2010) Symposium on Development and Plasticity of the Nervous System, Universidad de la Republica, Montevideo, Uruguay (2010) Symposium on Regenerative Medicine, Leopoldina, University of Tubingen, Germany (2011) Mechanisms of Organ Repair and Regeneration, NIDDK, NIH, Ellicott City (2011) Department of Biology, University of Kentucky (2011) International Symposium on Stem Cells and Regenerative Medicine, UNAM, Mexico City, Mexico (2011) Keystone conference on Organ Regeneration, Breckenridge, CO (2012) The 6th International meeting of the Latin American Society for Developmental Biology, Universidad de la Republica , Montevideo, Uruguay (2012) 8th Conference of the Greek Bioscientists, University of Patras, Greece (2012), Keynote speaker Stem Cell Institute, University of Minnesota (2012) 11th Annual Cell Molecular and Structural Biology Symposium, Miami University (2013), Keynote speaker 2nd Annual Retreat Center for Regenerative Medicine and Cell Based therapies, Mohican State Park (2013) Boston University Medical School (2013) International Conference on the Lens, speaker and session chair, Kona Hawaii (2014) GRC on Visual System Development, invited speaker, Il Ciocco, Italy (2014) XXI ISER meeting, San Francisco, CA, invited speaker (2014) EMBO Conference on the molecular and cellular basis of regeneration and tissue repair, Sant Feliu de Guixols, Spain (2014)

Grant Reviewer

International Science Foundation National Science Foundation National Research Council, CANADA NIH (AED study section, 2002-2005) NIH (ad hoc, several Institutes) American Philosophical Society UK government Wellcome Trust Raine Medical Res. Foundation (University of Western Australia) Agharkar Research Institute, India Medical Research Council, UK Sydney Medical Research Foundation, Australia National Health and Medical Research Council, Australia National Centre for the Replacement, Refinement and Reduction of Animals in Research, UK Science Foundation, Poland National Foundation for Medical Research and Innovation, Australia

Journal Reviewer (55)

Journal of Experimental Zoology, Human Molecular Genetics, Developmental Biology, International Journal of Developmental Biology, Development Genes & Evolution (formerly Roux's), Canadian Journal of Zoology, Science, Experimental Cell Research, Developmental Dynamics, Experimental Eye Research, Investigative Ophthalmology Visual Sciences, Journal of Morphology, in vivo, Oncology Reports, Proceedings of the Royal Society, Genesis, Cell & Tissue Research, Journal of Neurobiology, Radiation Research, Wound Repair & Regeneration, Neuroscience Letters, Mechanisms of Development, Molecular Vision, , Journal of Biosciences, Neuroscience, The Scientific World-Development and Embryology, Archives of Ophthalmology, Journal of Anatomy, Journal of Biological , Seminars Cell and Developmental Biology, Brain Research, Development, Biologia (Slovakia), Interface (Royal Society), Proceedings of the National Academy of Science USA, Current Eye Research, Mammalian Genome, Human Genomics, RNA, BMC Genomics, Progress in Retina and Eye Research, Journal of Biological Research, Nature Communications, BMC Developmental Biology, PLoS ONE, British Journal of Ophthalmology, Cell Stem Cell, Journal of Proteome Research, Planta, Stem Cells and Development, eLife, Cell Cycle, New England Journal of Medicine, Gene. BIBLIOGRAPHY

A. Books/Editions:

1. Tsonis, P.A. (Editor), Recent Trends in Development. Appeared as a special issue of In Vivo Vol 5, issue 5, 1991.

2. Tsonis, P.A. Limb Regeneration, Cambridge University Press (1996).

3. Tsonis, P.A. Anatomy of Gene Regulation: A 3-D structural analysis, Cambridge University Press (2003).

4. Tsonis, P.A. (Editor). From DNA to Proteins: The multiple levels of regulation. Talk series, Henry Steward Talks, www.hstalks.com (2006).

5. Tsonis, P.A. and Tsonis, A.A. Aristotelis Valaoritis’ Kyra Frossini: An English Translation. Nostos Books, Minneapolis, MN (2008).

6. Tsonis, P.A. (Editor). Animal Models for Eye Research, Academic Press (2008).

B. Scientific Papers: (Cited >4,070 times according to Scholar Google)

1. Kawakami, M., Tsonis, P.A., Nishio, K. and Takemura, S. Abnormal codon recognition of glycyl-tRNA from the posterior silk glands of Bombyx mori. J. Biochem. 88:1151-1157 (1980).

2. Tsonis, P.A. and Eguchi, G. Carcinogens on regeneration. Effects of MNNG and 4NQO on limb regeneration in adult newts. Differentiation 20:52-60 (1981).

3. Tsonis, P.A. and Eguchi, G. Abnormal limb regeneration without tumor production directed by carcinogens 20-methylocholanthrene and benzo(a)pyrene. Develop. Growth Differ. 24:183-190 (1982).

4. Tsonis, P.A. and Eguchi, G. Effects of a carcinogen N-methyl-nitro-N- nitrosoguanidine on blastema cells and blastema formation in newt limb regeneration. Develop. Growth Differ. 25:201-210 (1983).

5. Tsonis, P.A. Effects of carcinogens on regenerating and non-regenerating limbs in amphibia (review). Anticancer Res. 3:195-202 (1983).

6. Tsonis, P.A. and Hang, L. Lack of cellular differentiation with neoplastic-like proliferation in the limbs of the newt Cynops pyrrhogaster. Anticancer Res. 4:251-254 (1984).

7. Tsonis, P.A. Limb regeneration in newts with spontaneous skin cancer. Can. J. Zool. 62:2681-2685 (1984).

8. Tsonis, P.A. Mouse IgK sequence elements in Drosophila. Nature 312:314 (1984).

9. Tsonis, P.A. and Eguchi, G. The regeneration of newt limbs deformed in nature. Experientia 41:918-919 (1985).

10. Tsonis, P.A. Tissue regeneration as a model for cellular activation studies. Trends Biochem. Sci. 10:150-151 (1985).

11. Tsonis, P.A. Neural fold abnormalities induced in newt embryos by a carcinogen. Can. J. Zool. 63:1989-1990 (1985).

12. Tsonis, P.A. Studies on the effects of cancer inducing and promoting chemicals on newt regenerating and non-regenerating limbs. Arch. Biol. 96:331-336 (1985).

13. Tsonis, P.A. Ultrastructural features of intact and dedifferentiating tissues during newt limb blastema formation. Arch. Biol. 97:75-80 (1986).

14. Theofilopoulos, A.N., Kofler, R., Noonan, D., Singer, P., Tsonis, P.A., and Dixon, F.J. Molecular aspects of systemic lupus erythematosus (SLE), In: "Anti-IA Antibodies in the Treatment of Autoimmune Disease." (J. Brochier, J. Clot and J. Sany, eds.) Academic Press, Inc. (London) pp. 31-50 (1986).

15. Tsonis, P.A. and Lambris, J.D. Sequence similarity between a conserved sequence element of homoeo boxes and other gene regions. FEBS Lett. 194:263-266 (1986).

16. Tsonis, P.A. and Adamson, E.D. Specific expression of homoeobox-containing genes during induced differentiation of embryonal carcinoma cells. Biochem. Biophys. Res. Commun. 132:520-527 (1986).

17. Potamitis, G. and Tsonis, P.A. Molecular organization of gallstones. Dig. Dis. Sci. 32:332 (1987).

18. Tsonis, A.A. and Tsonis P.A. Fractals: A new look at biological shape and patterning. Persp. Biol. Med. 30:355-361 (1987).

19. Tsonis, P.A. Embryogenesis and carcinogenesis: Order and disorder. Anticancer Res. 7:617-624 (1987).

20. Manolagas, S.C., Provvedini, D.M., Murray, E.J., Murray, S.S., Tsonis, P.A. and Spandidos, D.A. Association between the expression of the c-myc mRNA and the expression of the receptor protein for 1,25 dihydroxyvitamin D3. Proc. Natl. Acad. Sci. USA 84:856-860 (1987).

21. Tsonis, P.A. The nature of positional information. Trends Biochem. Sci. 12:249 (1987).

22. Goetinck, P.F., Stirpe, N.S., Tsonis, P.A. and Carlone, D. The tandemly repeated sequences of cartilage link protein contain the sites for interaction with hyaluronic acid. J. Cell Biol. 105:2403-2408 (1987).

23. Tsonis, P.A. and Goetinck, P.F. Expression of cartilage matrix genes and localization of their translation products in the embryonic chick eye. Exp. Eye Res. 46:753-764 (1988).

24. Tsonis, P.A. and Goetinck, P.F. Homology of cellular vitamin A-binding protein to DNA-binding proteins. Biochem. J.249:933-934 (1988).

25. Tsonis, P.A. Oncogenes take a place in pattern formation. Trends Biochem. Sci 13:4-5 (1988).

26. Tsonis, P.A., Manes, T., Millan, J.L. and Goetinck, P.F. CAT constructs with unique sites for cloning and generating deletions. Nucleic Acids Res. 16:7745 (1988).

27. Tsonis, P.A., Argraves, W.S. and Millan, J.L. A putative functional domain of human placental alkaline phosphatase predicted from sequence comparisons. Biochem. J. 254:623-624 (1988).

28. Tsonis, P.A., Sowadski, J. and Goetinck, P.F. A consensus sequence in the N- terminus of exported proteins: Resemblance with metal binding domains and implications in protein translocation across membranes. Biochem. Biophys. Res. Commun. 156:99-107 (1988).

29. Tsonis, P.A. and Del Rio-Tsonis, K. Spontaneous neoplasms in amphibia. Tumor Biol. 9:221-224 (1988).

30. Tsonis, P.A. Pattern formation: From theoretical models to molecular biology. In Vivo 2:201-208 (1988).

31. Tsonis, P.A. and Goetinck, P.F. The Drosophila homoeotic gene spalt is structurally related to collagen a1(IV) chain. Collagen Rel. Res. 8:451-452 (1988).

32. Tsonis, P.A. and Manes, T. rapid phage DNA isolation without the use of enzymes. Biotechniques 6:950-951 (1988).

33. Tsonis, P.A., Carperos, V. and Siahaan, T. Modeling of the homoeo domain suggests similar structure to repressors. Biochem. Biophys. Res. Commun. 157:100-105 (1988).

34. Tsonis, P.A. Enzyme regions in structural and viral proteins. Protein Sequences & Data Analysis 2:189-191 (1989).

35. Kiss, I., Deak, F., Holloway, R.G., Delius, H., Mebust, K.A., Frimberger, E., Argraves, W.S., Tsonis, P.A., Winterbottom, N., and Goetinck, P.F. Structure of the gene for cartilage matrix protein, a modular protein of the extracellular matrix. J. Biol. Chem. 264:8126-8134 (1989).

36. Tsonis, P.A. and Tsonis, A.A. Chaos: Principles and implications in biology. Comput. Applic. Biosci. 5:27-32 (1989).

37. Tsonis, A.A., Elsner, J.B. and Tsonis, P.A. On the dynamics of a forced reaction- diffusion model for biological pattern formation. Proc. Natl. Acad. Sci. USA 86:4938-4942 (1989).

38. Tsonis, P.A. Molecular approaches in limb development and regeneration. Trends Biochem. Sci. 15: 82-83 (1990).

39. Tsonis, P.A. and Goetinck, P.F. Cell density dependent effect of a tumor promoter on proliferation and chondrogenesis of limb bud mesenchymal cells. Exp. Cell Res. 190: 247-253(1990).

40. Zilakos, N. and Tsonis, P.A. A spontaneous melanoma-like tumor in the adult newt Triturus cristatus. Tumor Biol. 12:120-124 (1991).

41. Tsonis, P.A. 1,25-Dihydroxyvitamin D3 stimulates chondrogenesis of the chick limb bud mesenchymal cells. Develop. Biol. 143: 130-134 (1991).

42. Tsonis, P.A. and Walker, E. Cell populations synthesizing cartilage proteoglycan core protein in the early chick limb bud. Biochem. Biophys. Res. Commun. 174: 688-695 (1991).

43. Tsonis, P.A., Del Rio-Tsonis,K., Rothrock, J., Dominguez, J., English D., Glade, K., and Goetinck, P.F. Inhibitory effects of phospholipase D on chondrogenesis in vitro. Exp. Cell Res. 195: 551-555 (1991).

44. Tsonis, A.A., Elsner, J.B. and Tsonis, P.A. Periodicity in DNA coding sequences: Implications in gene evolution. J. Theor. Biol. 151: 323-331 (1991).

45. Tsonis, P.A., English, D. and Mescher, A.L. Increased content of inositol phosphates in amputated limbs of axolotl larvae, and the effect of beryllium. J. Exp. Zool. 259: 252-259 (1991).

46. Tsonis, P.A. Amphibian limb regeneration. In Vivo 5: 541-550 (1991).

47. Tsonis, P.A., Mescher A.L., Washabaugh, C. and Del Rio-Tsonis, K. Gene expression during newt limb regeneration. Monogr. Dev. Biol. 23: 131-138 (1992).

48. Tsonis, P.A., Mescher, A.L. and Del Rio-Tsonis, K. Protein synthesis in the newt regenerating limb: Comparative 2-D PAGE, computer analysis and protein sequencing. Biochem. J. 281: 665-668 (1992).

49. Tsonis, P.A., Washabaugh, C.H. and Del Rio-Tsonis, K. Protein synthesis in the brain of newts undergoing limb regeneration. Int. J. Dev. Biol. 36: 331-334 (1992).

50. Washabaugh, C.H. and Tsonis, P.A. Histological analysis of limb regeneration in the California newt Taricha granulosa. In Vivo 6: 129-134 (1992).

51. Del Rio-Tsonis, K., Washabaugh, C.H. and Tsonis, P.A. The mutant axolotl short toes exhibits impaired limb regeneration and abnormal basement membrane formation. Proc. Natl. Acad. Sci. USA 89: 5502-5506 (1992).

52. Zilakos, N.P., Tsonis, P.A., Del Rio-Tsonis, K. and Parchment, R. Newt squamous carcinoma proves phylogenetic conservation of tumors as caricatures of tissue renewal. Cancer Res. 52: 4858-4865 (1992).

53. Del Rio-Tsonis, K. and Tsonis, P.A. Amphibian tissue regeneration: A model for cancer regulation. Intl. J. Oncol. 1: 161-164 (1992).

54. Tsonis, P.A. A two-dimensional gel comparative protein database of the newt intact and regenerating limb. Electrophoresis 14: 148-156 (1993).

55. Tsonis, P.A., Del Rio-Tsonis, K. and Washabaugh, C.H. Analysis of the mutant axolotl Short toes. In Limb Development and Regeneration. (Fallon, J.F et al, eds), Wiley-Liss, 171-179 (1993).

56. Fuentes, E., Mescher, A.L., Ekman, R. and Tsonis, P.A. Expression of Head Activator in newt tissues and effects on limb regeneration. In Vivo 7: 59-64 (1993).

57. Washabaugh, C.H., Del Rio-Tsonis, K. and Tsonis, P.A. Variable manifestations in the short toes (s) mutation of the axolotl. J. Morphol. 218: 107-114 (1993).

58. Tsonis, A.A., Elsner, J.B. and Tsonis, P.A. On the existence of scaling in DNA sequences. Biochem. Biophys. Res. Commun. 197: 1288-1295 (1993).

59. Tsonis, P.A., Washabaugh, C.H. and Del Rio-Tsonis, K. Morphogenetic effects of 9-cis retinoic acid on axolotl regenerating limbs. Roux's Arch. Develop. Biol. 203:230-234 (1994).

60. Fuentes, P.A., Pachter, R. and Tsonis, P.A. On the three-dimensional structure of the Hydra head activator. In Vivo 8: 199-206 (1994).

61. Del Rio-Tsonis, K. and Tsonis, P.A. Presence of oncogene- related sequences in amphibian genomes. Oncology Reports 1: 847-848 (1994).

62. Tsonis, P.A., Del Rio-Tsonis, K., Millan, J.L. and Wheelock, M.J. Expression of N- cadherin and alkaline phosphatase in the chick limb bud mesenchymal cells: Regulation by 1,25-dihydroxyvitamin D3 and TGF-beta1. Exp. Cell Res. 213: 433- 437 (1994).

63. Burns, J.C., Matsubara, T., Lozinski, G., Yee, J-K., Friedmann, T., Washabaugh, C.H. and Tsonis, P.A. Pantropic retroviral vector-mediated gene transfer, integration, and expression in newt limb blastema cells. Develop. Biol. 165:285- 289 (1994).

64. Del Rio-Tsonis, K. and Tsonis, P.A. Expression of transforming growth factor-β 1-4 in the chick limb bud mesenchymal cells: Regulation by 1,25 dihydroxyvitamin D3. Biochem. Biophys. Res. Commun. 204: 975-982 (1994).

65. Washabaugh, C.H. and Tsonis, P.A. Mononuclear leukocytes in the newt limb blastema: in vitro behavior. Intl. J. Dev. Biol. 38: 745-749 (1994).

66. Tsonis, P.A. and Del Rio-Tsonis, K. Protein separation techniques in the study of tissue regeneration. J. Chromat. A 698: 361-367 (1995).

67. Del Rio-Tsonis, K., Washabaugh, C.H. and Tsonis, P.A. Expression of pax-6 during urodele eye development and lens regeneration. Proc. Natl. Acad. Sci. USA 92: 5092-5096 (1995).

68. Washabaugh, C.H., Del Rio-Tsonis, K., Wallace, J.L and Tsonis, P.A. Cloning of homeobox sequences expressed in the intact and the regenerating newt eye. Gene 158: 301-302 (1995).

69. Tsonis, P.A., Washabaugh, C.H. and Del Rio-Tsonis, K. Transdifferentiation as a basis for amphibian limb regeneration. Seminars Cell Biol. 6: 127-135 (1995). 70. Washabaugh, C.H. and Tsonis, P.A. Effects of vitamin D metabolites on axolotl limb regeneration. Develop. Growth & Differ. 37: 497-503 (1995).

71. Tsonis, A.A., Kumar, P., Elsner, J. and Tsonis, P.A. Wavelet analysis of DNA sequences. Physical Review E 53: 1828-1834 (1996)

72. Allenspach, A.L., Maynard, H. and Tsonis, P.A. Visualization of proteoglycans and link protein in the embryonic chick limb cartilage via cryofixation, freeze substitution and immunochemical techniques. J. 182: 84-94 (1996).

73. Tsonis, P.A., Sargent, M.T., Del Rio-Tsonis, K. and Jae Chang Jung. 9-cis retinoic acid antagonizes the stimulatory effect of 1,25-dihydroxyvitamin D3 on chondrogenesis of chick limb bud mesenchymal cells: Interactions of their receptors. Int. J. Dev. Biol. 40: 1053-1059 (1996).

74. Tsonis, P.A., Del Rio-Tsonis, K., Wallace, J.L.,Burns, J.C., Hofmann, M-C., Millan, J.L. and Washabaugh, C.H. Can insights into urodele limb regeneration be achieved with cell cultures and retroviruses? Int. J. Dev. Biol. 40: 813-816 (1996).

75. Del Rio-Tsonis, K., Covarrubias, L., Kent, J., Hastie, N.D. and Tsonis, P.A. Regulation of Wilms' tumor gene during spermatogenesis. Develop. Dyn. 207: 372-381 (1996). Selected for the journal cover.

76. Tsonis, P.A., Doanne, K. and Del Rio-Tsonis, K. Expression of integrins during amphibian limb regeneration. Develop. Growth & Diff. 39: 9-14 (1997).

77. Tsonis, A.A., Elsner, J.B. and Tsonis, P.A. Is DNA a language? J. Theor. Biol. 184: 25-29 (1997).

78. Tsonis, P.A. and Tsonis A.A. Simplicity and complexity in gene evolution Complexity 2(5): 23-30 (1997).

79. Tsonis, A.A., Schultz, C. and Tsonis, P.A. Zipf's law and the structure and evolution of languages. Complexity 2 (5): 12-13 (1997).

80. Del Rio-Tsonis, K., Jung, J.C., I-M. Chiu and Tsonis, P.A. Conservation of FGF function in lens regeneration. Proc. Natl. Acad. Sci. USA 94: 13701-13706 (1997).

81. Jung, J.C., Del Rio-Tsonis, K. and Tsonis, P.A. Regulation of homeobox-containing genes in lens regeneration. Exp. Eye Res. 66: 361-370 (1998).

82. Jung, J.C. and Tsonis, P.A. Role of 5' HOXD genes in chondrogenesis in vitro. Intl J. Dev. Biol. 42: 609-615 (1998).

83. Beauchemin, M., Del Rio-Tsonis, K., Tsonis, P.A., Tremblay, M. and Savard, P. Graded expression of Emx-2 in the adult newt limb and its corresponding regeneration blastema. J. Mol. Biol. 279: 501-511 (1998).

84. Del Rio-Tsonis, K., McMahon, G. and Tsonis, P.A. Regulation of lens regeneration by fibroblast growth factor receptor 1. Develop. Dyn. 213: 140-146 (1998).

85. D'Jamoos, C., McMahon, G. and Tsonis, P.A. Fibroblast growth factor receptors regulate the ability for limb regeneration. Wound Repair Regen. 6: 388-397 (1998).

86. Del Rio-Tsonis, K., Tsonis, P.A., Zarkadis, I.K., Tsangas A.G. and Lambris J.D. Expression of the axolotl C3 in the regenerating limb blastema cells. J. Immunol. 161: 6819-6824 (1998).

87. Tsonis, P.A. Regeneration of the vertebrate lens and other eye structures. In: Encyclopedia of Life Sciences, Nature Publishing Group, London, www.els.net (1999). (in print, 2001.)

88. Del Rio-Tsonis, K., Tomarev, S.I. and Tsonis, P.A. Regulation of Prox-1 during lens regeneration. Invest. Ophthalmol. Vis. Sci. 40: 2039-2045 (1999).

89. Tsonis, P.A. Regeneration of the lens in amphibians. In: Vertebrate Eye Development (E. Fini, ed), Springer 179-196 (2000).

90. Tsonis, P.A. Regeneration in vertebrates. Develop. Biol. 221: 273-284 (2000).

91. Tsonis, P.A., Trombley, M.T., Rowland, T., Chandraratna, R.A.S. and Del Rio- Tsonis. Role of retinoic acid in lens regeneration. Dev. Dyn. 219: 588-593 (2000).

92. Tsonis, A.A. and Tsonis P.A. Information transfer and home field advantage. Mathematics Today 37: 24-25 (2001).

93. Mastellos, D, Papadimitriou, J.C., Franchini, S., Tsonis, P.A. and Lambris, J.D. A novel role of complement: Mice deficient in the fifth component of complement (C5) exhibit impaired liver regeneration. J. Immunol. 166: 2479-2486 (2001).

94. Tsonis, P.A., Jang, W., Del Rio-Tsonis, K. and Eguchi, G. A unique aged human retinal pigmented epithelium cell line useful for studying lens differentiation in vitro. Intl. J. Dev. Biol. 45: 753-758 (2001).

95. Tsonis, A.A., Heller, F.L. and Tsonis P.A. Nonlinearity in DNA sequences: Implications in gene evolution. Physica A 312: 458-468 (2002).

96. Tsonis, P. A. and Tsonis, A.A. Linguistic features in eukaryotic genomes Complexity 7: 13-15 (2002).

97. Tsonis, P.A. Regenerative biology. The emerging field of tissue repair and restoration. Differentiation 70: 397-409 (2002).

98. Tsonis, P.A., Tsavaris, M., Call, M., Chandraratna, R.A.S. and Del Rio-Tsonis, K. Expression and role of retinoic receptor alpha in lens regeneration. Develop. Growth & Differ. 44: 391-394 (2002).

99. Del Rio-Tsonis, K. and Tsonis, P.A. Eye regeneration at the molecular age. Dev. Dyn. 226: 211-224 (2003).

100. Thitoff, A.R., Call, M., Del Rio-Tsonis, K. and Tsonis, P.A. Unique expression patterns of the retinoblastoma (Rb) gene in intact and lens regeneration- undergoing newt eye. Anatomical Record 271A: 185-188 (2003).

101. Kimura, Y., Madhavan, M., Call, M.K., Santiago, W., Tsonis, P.A., Lambris, J.D., and Del Rio-Tsonis, K. Expression of complement components C3 and C5 in newt limb and lens regeneration J. Immunol. 170: 2331-2339 (2003).

102. Weissig, H., K., Sikstrom, C., Olsson, P.G., McCarrey, J.R., Tsonis, P.A., Del Rio- Tsonis, K. and Millan, J.L. Differential expression of three novel zinc finger genes during spermatogenesis FEBS Letters 547: 61-68(2003).

103. Tsonis, A.A. and Tsonis, P.A. On words and genes. Complexity 8:12-13 (2003).

104. Tsonis, P.A. and Tsonis, A.A. A small world hypothesis for memory and dreams. Perspect Biol. Med. 47: 176-180 (2004).

105. Tsonis, P.A., Call, M., Gainer, S., Rice, A. and Del Rio-Tsonis, K. Effects of a CDK inhibitor on lens regeneration. Wound Repair & Regeneration 12: 24-29 (2004).

106. Tsonis, P.A. and Del Rio-Tsonis, K. Lens and retina regeneration: Transdifferentiation, stem cells and clinical applications. Exp. Eye Res. 78: 161-172 (2004).

107. Call, M.K., Grogg, M. Del Rio-Tsonis, K. and Tsonis, P.A. Lens regeneration in mice: Implications in cataracts. Exp. Eye Res. 78: 297-299 (2004).

108. Tsonis, P.A., Vergara, M.N., Kramer, E. L., Spence, J.R., Madhavan, M., Call, M.K., Santiago, W.G., valance, J.E., Robbins, D.J., and Del Rio-Tsonis, K. A novel role of the hedgehog pathway in lens regeneration. Develop Biol. 267: 450-461 (2004).

109. Tsonis, P.A. Stem cells from differentiated cells. Molecular Interventions 4: 81-83 (2004).

110. Tsonis, P.A., Tancous, E., Madhavan, M. and Del Rio-Tsonis, K. A newt’s eye view of lens regeneration. Int. J. Dev. Biol. 48: 975-980 (2004).

111. Call, M.K. and Tsonis, P.A. Vertebrate limb regeneration. In Regenerative Medicine (I.V. Yiannas, ed.) Adv. Biochem. Eng. Biotechnol. 93: 67-81 (2005).

112. Tsonis, A.A. and Tsonis, P.A. Exploring nonlinearity to identify genes and intergenic regions in genomes. Physica A 348: 339-348 (2005).

113. Grogg, M.W., Call, M.K., Okamoto, M., Vergara, M.N., Del Rio-Tsonis, K. and Tsonis, P.A. BMP inhibition-driven regulation of six-3 underlies induction of newt lens regeneration. Nature 438: 858-862 (2005).

114. Call, M.K., Grogg, M.W. and Tsonis, P.A. Eye on regeneration. Anat. Rec. (New Anat.) 287:42-48 (2005). Selected for the journal cover.

115. Tsonis, P.A. and Fuentes, E.J. Pax-6, the eye master. Exp. Eye Res. 83: 233-234 (2006).

116. Tsonis, P.A., Lambris, J.D. and Del Rio-Tsonis, K. To regeneration… with complement. In: Current Topics in Complement (J.D. Lambris, ed), Springer (2006).

117. Medvedovic, M., Tomlinson, C., Call, M.K., Grogg, M.W. and Tsonis, P.A. Gene expression and discovery during lens regeneration in mouse: Regulation of EMT and lens differentiation. Molecular Vision 12: 422-440 (2006).

118. Tsonis, P.A. How to build and re-build a lens. J. Anat. 209:433-437 (2006).

119. Sanchez Alvarado, A. and Tsonis, P.A. Bridging the regeneration gap: genetic insights from diverse animal models. Nature Rev. Genetics 7:873-884 (2006).

120. Madhavan, M., Haynes, T.L., Frisch, N.C., Call, M.K., Minich, C. M., Tsonis, P.A. and Del Rio-Tsonis, K. The role of pax-6 in lens regeneration. Proc. Natl. Acad. Sci. USA 103: 14848-14853 (2006).

121. Grogg, M.W., Call, M.K. and Tsonis, P.A. Signaling during lens regeneration. Sem. Cell Dev. Biol. 17: 753-758 (2006).

122. Makarev E.O., Spence, J.R., Del Rio-Tsonis, K and Tsonis, P.A. Identification of miRNAs and other small RNAs from the adult newt eye. Molecular Vision 7: 1386-1391 (2006).

123. Tsonis, P.A. Regeneration via transdifferentiation: The lens and hair cells Hearing Res. 227: 28-31 (2007). Selected for the journal cover.

124. Makarev, E.O, Call, M.K., Grogg, M.W., Atkinson, D.L., Milash, B., Odelberg, S. and Tsonis, P.A. Gene expression signatures in the newt irises during lens regeneration. FEBS Letters 581: 1865-1870 (2007).

125. Tsonis, P.A., Call, M.K., Grogg, M.,Sartor, M.,Taylor, R.R., Forge, A., Fyffe, R., Goldenberg, R., Cowper-Sal.lari, R. and Tomlinson C.R. microRNAs and regeneration: let-7 members as potential regulators of dedifferentiation in lens and inner ear hair cell regeneration of the adult newt. Biochem. Biophys. Res. Commun. 362: 940-945 (2007).

126. Okamoto, M., Ohsawa, H., Hayashi, T., Owaribe, K. and Tsonis, P.A. Regeneration of retinotectal projections after optic tectum removal in adult newts Molecular Vision 13: 2112-2118 (2007).

127. Tsonis, P.A. Bridging knowledge gaps on the long road to regeneration: Classical models meet stem cell manipulation and bioengineering. Molecular Interventions 7: 249-250 (2007).

128. Tsonis, P.A. and Makarev, E. On dorsal/ventral-specific genes in the iris during lens regeneration. Cell. Mol. Life Sci. 65: 41-44 (2008).

129. Czarnecki J., Lafdi, K. and Tsonis, P.A. A novel approach to control orientation and shape of human osteoblasts. Tissue Engineering 14: 255- 265(2008). Selected for the journal cover.

130. Haynes, T., Gutierrez, C., Aycinenal, J-C., Tsonis, P.A. and Del Rio-Tsonis K. BMP signaling mediates stem/progenitor cell induction of neural retina regeneration. Proc. Natl. Acad. Sci. USA 104: 20380-20385 (2007).

131. Tsonis, P.A. and Dwivedi, B. Molecular mimicry: Structural camouflage of proteins and nucleic acids. BBA Molecular Cell Research 1783: 177-187 (2008).

132. Tsonis, P.A. Stem cells and βλάστηµα cells. Curr. Stem Cell Res. & Therapy 3: 53-54 (2008).

133. Vergara, M.N., Smiley, L.K., Del Rio-Tsonis, K and Tsonis, P.A. The α1 isoform of the Na+/K+ ATPase is up-regulated in dedifferentiated progenitor cells that mediate lens and retina regeneration in adult newts. Exp. Eye Res. 88: 314-322 (2009).

134. Roddy, M., Fox, T.P., McFadden, J.P., Nakamura, K., Del Rio-Tsonis, K. and Tsonis, P.A. A Comparative proteomic analysis during urodele lens regeneration. Biochem. Biophys. Res. Commun. 377: 275-279 (2008).

135. Roddy, M. and Tsonis, P.A. The newt as a model for eye regeneration. In: Animal Models in Eye Research (Tsonis, P.A. editor), Academic Press (2008).

136. Pitychoutis P.M., Nakamura, K., Tsonis, P.A. and Papadopoulou-Daifoti, Z. Neurochemical and behavioural alterations in an inflammatory model of depression: sex differences exposed. Neuroscience 159:1216-1232 (2009).

137. Maki, N., Suetsugu-Maki, R., Tarui, H., Agata, K., Del Rio-Tsonis, K and Tsonis, P.A. Expression of stem cell pluripotency factors during regeneration in newts Develop. Dyn. 238: 1613-1616 (2009).

138. Tsonis, P.A. and Fox, T.P. Regeneration according to Spallanzani. Develop. Dyn. 238; 2357-2363 (2009).

139. Tsonis, P.A. Lens regeneration. In: Encyclopedia of Eye and Vision (Elsevier) (2010).

140. Zhang, M.W., Park, H., Guo, X., Nakamura, K., Raphael, R.M., Kasper, F.K., Mikos, A.G. and Tsonis, P.A. Adapting biodegradable oligo(poly9ethylene glycol) fumarate) hydrogels for pigmented epithelial cell encapsulation and lens regeneration Tissue Engineering 16: 261-267 (2010).

141. Maki, N., Martinson, J., Nishimura, O., Tarui, H., Meller, J., Tsonis, P.A. and Agata K. Expression profiles during dedifferentiation in newt lens regeneration revealed by expressed sequence tags. Mol Vis. 16: 72-78 (2010).

142. Singh, A. and Tsonis, P.A. Six-3: Master or apprentice? Exp. Eye Res. 90: 535-536 (2010).

143. Bhavsar, R.B., Makley, L.N. and Tsonis, P.A. The other lives of ribosomal proteins. Human Genomics 4: 327-344 (2010).

144. Maki, N., Suetsugu-Maki, R., Sano, S., Nakamura, K., Nishimura, O., Tarui, H., Del Rio-Tsonis, K., Ohsumi, K., Agata, K. and Tsonis, P.A. Oocyte-type linker histone B4 is required for transdifferentiation of somatic cells in vivo. FASEB J. 24: 3462-3467 (2010).

145. Henry, J. J. and Tsonis, P.A. Molecular and cellular aspects of amphibian lens regeneration. Progress in Retinal and Eye Research. 29: 543-555 (2010).

146. Nakamura, K., Maki, N., Trinh, A., Trask. H.W., Gui, J., Tomlinson, C.R. and Tsonis, P.A. miRNAs in newt lens regeneration: Specific control of proliferation and evidence for miRNA networking. PLoS ONE 5(8): e12058. doi:10.1371/journal.pone.0012058 (2010).

147. Tsonis, A.A., K. L. Swanson, K.L., Sugihara, G. and Tsonis, P.A. Climate change and the demise of Minoan civilization. Clim. Past 6: 525-530 (2010); doi:10.55194/cp-6-525-2010

148. Maki, N., Tsonis, P.A. and Agata K. Changes in global histone modifications during dedifferentiation in newt lens regeneration. Mol. Vis. 16: 1893-1897 (2010).

149. Bhavsar, R.B., Nakamura, K. and Tsonis, P.A. A system for culturing iris pigment epithelial cells to study lens regeneration in newt. http://www.jove.com/details.php?id=2713 doi: 10.3791/2713. J. Vis. Exp. 52 (2011).

150. Tsonis, P.A., Haynes, T., Maki, N., Nakamura, K., Casco-Robles, M.M., Yamada, S., Miura, T., Chiba, C. and Del Rio-Tsonis. Controlling gene loss of function in newts with emphasis on lens regeneration. Nature Protocols 6: 593-599 (2011).

151. Casco-Robles, M.M., Yamada, S., Miura, T., Nakamura, K., Haynes, T., Maki, N., Del Rio-Tsonis, K., Tsonis, P.A. and Chiba, C. Expressing exogenous genes in newts by transgenesis. Nature Protocols 6: 600-608 (2011). Selected for the journal cover.

152. Hoffmann, A. and Tsonis, P.A. Traveling backward: De-differentiation to stemness. Molecular Interventions 11: 15-17 (2011).

153. Suetsugu-Maki, R., Maki, N., Fox, T.P., Nakamura, K., Cowepr.Solari, R. Tomlinson, C.R., Qu, H., Lambris, J.D. and Tsonis, P.A. A complement receptor C5a antagonist regulates epithelial to mesenchymal transition and crystallin expression after lens cataract surgery in mice. Mol. Vis. 17: 949-964 (2011).

154. Eguchi, G., Eguchi, Y., Nakamura, K., Yadav, M.C., Millan, J-L. and Tsonis, P.A. Regenerative capacity in newts is not altered by repeated regeneration and aging. Nature Commun. 2: 384, DOI: 10.1038/ncomms1389 (2011). Press release by the journal.

155. Sousounis, K. and Tsonis, P.A. Patterns of gene expression in microarrays and ESTs from normal and cataractous lenses. Human Genomics 6 (1):14 (2012).

156. Czarnecki, J.S., Lafdi, K., Joseph, R.M. and Tsonis PA. Hybrid carbon-based scaffolds for applications in soft tissue reconstruction. Tissue Eng Part A. 18(9- 10):946-56. doi: 10.1089/ten.TEA.2011.0533. (2012).

157. Hoffmann, A., Huang, Y., Suetsugu-Maki, R., Ringelberg, C.S., Tomlinson, C.R., Del Rio-Tsonis, K. and Tsonis, P.A. Implication of the miR-184 and miR-204 Competitive RNA Network in Control of Secondary Cataracts in Mice. Molecular Medicine 18:528-538 (2012). doi: 10.2119/molmed.2011.00463.

158. Baddour, J.A., Sousounis, K. and Tsonis, P.A. Organ repair and regeneration: An overview. Birth Defects Research C: Embryo Today 96(1):1-29. doi: 10.1002/bdrc.21006 (2012). Selected for the journal cover.

159. Pitychoutis PM, Dalla C, Sideris AC, Tsonis PA, Papadopoulou-Daifoti Z. 5- HT(1A), 5-HT(2A), and 5-HT(2C) receptor mRNA modulation by antidepressant treatment in the chronic mild stress model of depression: sex differences exposed. Neuroscience 210:152-67 (2012).

160. Hoffmann, A. and Tsonis, P.A. Pattern formation in regenerating tissues. In: Pattern formation in morphogenesis. Springer Proceedings in Mathematics, Vol. 15 Capasso, V.; Gromov, M.; Harel-Bellan, A.; Morozova, N.; Pritchard, L. (Eds.) (2012).

161. Vergara, M.N. and Tsonis, P.A. The past, present and future of tissue regeneration. In: Regenerative , G. Christ and K-E. Andersson (eds), Cambridge University Press (2013).

162. Sousounis, K., Haley, C.E., Cao, J., Sunchu, B. and Tsonis, P.A. Conservation of the three-dimensional structure in non-homologous or unrelated proteins. Human Genomics 6:10. doi: 10.1186/1479-7364-6-10 (2012).

163. Barbosa-Sabanero K, Hoffmann A, Judge C, Lightcap N, Tsonis PA, Del Rio- Tsonis K. Lens and retina regeneration: new perspectives from model organisms. Biochem J.;447(3):321-334 (2012). doi: 10.1042/BJ20120813.

164. Wang Y, Li W, Zang X, Chen N, Liu T, Tsonis PA, Huang Y. MicroRNA-204-5p regulates epithelial-to-mesenchymal transition during human posterior capsule opacification by targeting SMAD4. Invest Ophthalmol Vis Sci. 54(1):323-32 (2013). doi:10.1167/iovs.12-10904.

165. Suetsugu-Maki R, Maki N, Nakamura K, Sumanas S, Zhu J, Del Rio-Tsonis K Tsonis PA. Lens regeneration in axolotl: new evidence of developmental plasticity. BMC Biology 10:103 (2012). doi:10.1186/1741-10-103.

166. Sousounis K, Michel CS, Bruckskotten M, Maki N, Borchardt T, Braun T, Looso M, Tsonis PA. A microarray analysis of gene expression patterns during early phases of newt lens regeneration. Molecular Vision 19: 135-145 (2013).

167. Looso M, Preussner J, Sousounis K, Bruckskotten M, Michel CS, Lingelli E, Reinhardt R, Hoffner S, Kruger M, Tsonis PA, Borchardt T, Braun T. A de novo assembly of the newt transcriptome combined with proteomic validation identifies new protein families expressed during tissue regeneration. Genome Biol. 14: R16 (2013). Highly accessed; press release by the journal. Highlighted in Nature 495: 145 doi:10.1038/495145e

168. Voss SR, Putta S, Walker JA, Smith JJ, Maki N, Tsonis PA. Salamander Hox cluster contain repetitive DNA and expanded non-coding regions. A typical Hox structure for non-mammalian tetrapod vertebrates? Human Genomics 7: 9 (2013).

169. Ogura A, Yoshida M, Moritaki T, Okuda Y, Sese J, Shimizu KK, Sousounis K, Tsonis PA. Loss of the six3/6 controlling pathways might have resulted in pinhole-eye evolution in Nautilus. Scientific Reports 3: 1432, DOI: 10.1038/srep01432 (2013).

170. Sousounis K, Looso M, Maki N, Ivester CJ, Braun T, Tsonis PA. Transcriptome analysis of newt lens regeneration reveals distinct gradients in gene expression patterns. PLoS ONE 8(4): e61445. doi:10.1371/journal.pone.0061445 (2013).

171. Hoffmann A, Nakamura K, Tsonis PA. Intrinsic lens forming potential of mouse lens epithelial versus newt iris pigment epithelial cells in three-dimensional culture. Tissue Engineering Part A 20 (2): 91-103 (2014). doi: 10.1089/ten.TEC.2013.0078. Epub 2013 Jul 10. Selected for the Journal cover

172. Haynes T, Luz-Madrigal A, Reis ES, Echeverri Ruiz NP, Grajales-Esquivel E, Tzekou A, Tsonis PA, Lambris JD, Del Rio-Tsonis K. Complement anaphylatoxin C3a is a potent inducer of embryonic chick retina regeneration. Nature Commun. 4: 2312 doi:10.1038/ncomms3312 (2013).

173. Sousounis K, Ogura A, Tsonis PA. Transcriptome analysis of Nautilus and pygmy squid developing eye provides insights in lens and eye evolution. PLoS ONE 8(10): e78054, doi:10.1371/journal.pone.0078054 (2013).

174. Sousounis K, Baddour JA, Tsonis PA. Aging and regeneration in vertebrates. Curr Top Dev Biol. 108:217-46. doi: 10.1016/B978-0-12-391498-9.00008-5 (2014).

175. PitychoutisPM, Sanoudou D, Papandreou M, Nasias D, Kouskou M, Tomlinson CR, Tsonis PA, Papadopoulou-Daifoti Z. Forced swim test induces divergent global transcriptomic alterations in the hippocampus of high versus low novelty-seeker rats. Human Genomics 8:4 (2014).

176. Luz-Madrigal A, Grajales-Esquivel E, McCorkle A, DiLorenzo AM, Barbosa- Sabanero K, Tsonis PA and Del Rio-Tsonis K. Reprogramming of the chick retinal pigmented epithelium after retinal injury. BMC Biol. 12(1):28 (2014). doi:10.1186/1741- 7007-12-28

177. Czarnecki JS, Blackmore M, Jolivet S, Lafdi L, and Tsonis PA. Reticulated vitreous carbon-based foam scaffolds and predictive modeling techniques for bone tissue repair and reconstruction. Carbon 79: 135-148 (2014). http://dx.doi.org/10.1016/j.carbon.2014.07.052

178. Czarnecki JS, Jolivet S, Blackmore M, Lafdi L, and Tsonis PA. Cellular Automata simulation of osteoblast growth on microfibrous carbon-based scaffolds. Tissue Engineering A (2014). doi: 10.1089/ten.tea.2013.0387

179. Bhavsar R and Tsonis PA. Exogenous Oct-4 inhibits lens transdifferentiation in the newt Notophthalmus viridescens. PLoS ONE 9(7): e102510.doi:10.1371/journal.pone.0102510.

180. Tsonis PA and Del Rio-Tsonis K. In memoriam: A man for all eyes-Walter Gehring, 1939-2014. Mol. Vis. 20: 988-990 (2014).

181. Sousounis K, Athippozhy AT, SR Voss and Tsonis PA. Plasticity for axolotl lens regeneration is associated with age-related changes in gene expression. Regeneration (in press).

182. Czarnecki JS, Lafdi K and Tsonis PA. The future of carbon-based scaffolds. Foot and Ankle Surgery. Clin Pod Med Surg (2014, in press).

183. Hoang TV, Kumar, PKR, Sutharzan S, Tsonis PA, Liang C and Robinson ML. Comparative transcriptome analysis of epithelial and fiber cells in newborn mouse lenses by RNA sequencing. Mol. Vis. (2014, in press).

184. Sousounis K and Tsonis PA. Lens regeneration. In: Lens Epithelium and Posterior Capsular Opacification (S. Saika, L. Werner, F. Lovicu, eds), Springer 131- 141 (2014).

185. Kumar PKR, Hoang TV, Robinson ML, Tsonis PA and Liang C. CADBURE: Generic tool to evaluate spliced aligner performance on a given RNA-Seq dataset and an evaluation of methods used for differential gene expression analysis (submitted).