Advertisement

Cellular to Tissue Informatics: Approaches to Optimizing Cellular Function of Engineered Tissue

  • Sachin Patil
  • Zheng Li
  • Christina Chan
Chapter
Part of the Advances in Biochemical Engineering/Biotechnology book series (ABE, volume 102)

Abstract

Tissue engineering is a rapidly expanding, multi-disciplinary field in biomedicine. It provides the ability to manipulate living cells and biomaterials for the purpose of restoring, maintaining, and enhancing tissue and organ function. Scientists have engineered various tissues in the body, from skin substitutes to artificial nerves to heart tissues, with varying degrees of success. Although the field of tissue engineering has come a long way since its first successful demonstration by Bisceglie in the 1930s, methods of coaxing them into functional tissues have been predominantly empirical to date. To successfully develop tissue-engineered organs, it is important to understand how to maintain the cells under conditions that maximize their ability to perform their physiological roles, regardless of their environment. In that context, a methodology that combines empirical data with mathematical and statistical techniques, such as metabolic engineering and cellular informatics, to systematically determine the optimal (1) type of cell to use, (2) scaffold properties and the corresponding processing conditions to achieve those properties, and (3) the required types and levels of environmental factors and the operating conditions needed in the bioreactor, will enable the design of viable and functional tissues tailored to the specific requirements of individual situations.

Keywords

Tissue Engineering Biomed Mater Tissue Construct Fisher Discriminate Analysis Network Component Analysis 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

Notes

Acknowledgments

This work is supported in part by the National Science Foundation (BES 0222747 and BES 0331297) and the Whitaker Foundation. L.Z. is supported in part by the Center for Biological Modeling: Quantitative Biology Interdisciplinary Graduate Research Award at Michigan State University.

References

  1. 1.
    UNOS (2005) Organ distribution: allocation of livers (Policy 3.6). United Network of Organ Sharing, Richmond, VA (see http://www.unos.org/PoliciesandBylaws/policies/pdfs/policy_8.pdf , last accessed 6th October 2005)
  2. 2.
    Romero M, Parera A, Salcedo M, Abeytua R et al. (1999) Transplant Proc 31:2364 CrossRefGoogle Scholar
  3. 3.
    Gisbert C, Prieto M, Berenguer M et al. (1997) Liver Transpl Surg 3:416 CrossRefGoogle Scholar
  4. 4.
    Johnston SD, Morris JK, Cramb R, Gunson BK, Neuberger J (2002) Transplantation 73:901 CrossRefGoogle Scholar
  5. 5.
    Fuchs JR, Nasseri BA, Vacanti JP (2001) Ann Thorac Surg 72:577 CrossRefGoogle Scholar
  6. 6.
    Bonadio J (2002) Ann N Y Acad Sci 961:58 CrossRefGoogle Scholar
  7. 7.
    Fibrogen, Inc. (2005) Website. Fibrogen, Inc., San Francisco, CA (see http://www.fibrogen.com/tissue/ , last accessed 6th October 2005)
  8. 8.
    Chapekar MS (1996) J Biomed Mater Res 33:199 CrossRefGoogle Scholar
  9. 9.
    Chapekar MS (2000) J Biomed Mater Res 53:617 CrossRefGoogle Scholar
  10. 10.
    Lee KY, Peters MC, Anderson KW, Mooney DJ (2000) Nature 408:998 CrossRefGoogle Scholar
  11. 11.
    Griffith LG, Naughton G (2002) Science 295:1009 CrossRefGoogle Scholar
  12. 12.
    Ariizumi T, Komazaki S, Asashima M, Malacinski GM (1996) Int J Dev Biol 40:715 Google Scholar
  13. 13.
    Asashima M, Nakano H, Uchiyama H, Sugino H, Nakamura T, Eto Y, Ejima D, Nishimatsu S, Ueno N, Kinoshita K (1991) Proc Natl Acad Sci USA 88:6511 CrossRefGoogle Scholar
  14. 14.
    Hevehan D, Miller WM, Papoutsakis ET (2000) Exp Hematol 28:1016 CrossRefGoogle Scholar
  15. 15.
    Jackson KA, Mi T, Goodell MA (1999) Proc Natl Acad Sci USA 96:14482 CrossRefGoogle Scholar
  16. 16.
    Geladi P, Kowalski BP (1986) Anal Chim Acta 185:19 CrossRefGoogle Scholar
  17. 17.
    Eschenhagen T, Didie M, Munzel F, Schubert P, Schneiderbanger K, Zimmermann WH (2002) Basic Res Cardiol 97 Suppl 1:I146 Google Scholar
  18. 18.
    Cheng B, Chen Z (2002) Chin J Traumatol 5:214 Google Scholar
  19. 19.
    Weinberg CB, Bell E (1986) Science 231:397 CrossRefGoogle Scholar
  20. 20.
    Burke JF, Yannas IV, Quinby WC Jr, Bondoc CC, Jung WK (1981) Ann Surg 194:413 CrossRefGoogle Scholar
  21. 21.
    Oberpenning F, Meng J, Yoo JJ, Atala A (1999) Nat Biotechnol 17:149 CrossRefGoogle Scholar
  22. 22.
    Awad HA, Butler DL, Boivin GP, Smith FN, Malaviya P, Huibregtse B, Caplan AI (1999) Tissue Eng 5:267 CrossRefGoogle Scholar
  23. 23.
    Cao Y, Vacanti JP, Ma X, Paige KT, Upton J, Chowanski Z, Schloo B, Langer R, Vacanti CA (1994) Transplant Proc 26:3390 Google Scholar
  24. 24.
    Stading M, Langer R (1999) Tissue Eng 5:241 CrossRefGoogle Scholar
  25. 25.
    Huang D, Chang TR, Aggarwal A, Lee RC, Ehrlich HP (1993) Ann Biomed Eng 21:289 CrossRefGoogle Scholar
  26. 26.
    Humes HD, Buffington DA, MacKay SM, Funke AJ, Weitzel WF (1999) Nat Biotechnol 17:451 CrossRefGoogle Scholar
  27. 27.
    Hibino N, Imai Y, Shin-oka T, Aoki M, Watanabe M, Kosaka Y, Matsumura G, Konuma T, Toyama S, Murata A, Naito Y, Miyake T (2002) Kyobu Geka 55:368 Google Scholar
  28. 28.
    Chen SC, Mullon C, Kahaku E, Watanabe F, Hewitt W, Eguchi S, Middleton Y, Arkadopoulos N, Rozga J, Solomon B, Demetriou AA (1997) Ann N Y Acad Sci 831:350 CrossRefGoogle Scholar
  29. 29.
    Hu WS, Cerra FB, Nyberg SL, Scholz MT, Shatford RA (1997) US Patent 5 605 835 Google Scholar
  30. 30.
    Lanza RP, Chick WL (1997) Ann N Y Acad Sci 831:323 CrossRefGoogle Scholar
  31. 31.
    Allen JW, Bhatia SN (2002) Tissue Eng 8:725 CrossRefGoogle Scholar
  32. 32.
    Langer R, Vacanti JP (1993) Science 260:920 CrossRefGoogle Scholar
  33. 33.
    Brieva TA, Moghe PV (2001) Biotechnol Bioeng 76:295 CrossRefGoogle Scholar
  34. 34.
    Kim BS, Nikolovski J, Bonadio J, Mooney DJ (1999) Nature 17:979 CrossRefGoogle Scholar
  35. 35.
    Alsberg E, Anderson KW, Albeiruti A, Rowley JA, Mooney DJ (2002) Proc Natl Acad Sci USA 99:12025 CrossRefGoogle Scholar
  36. 36.
    Lauffenburger DA, Griffith LG (2001) Proc Natl Acad Sci USA 98:4282 CrossRefGoogle Scholar
  37. 37.
    Yarmush DM, MacDonald AD, Foy BD, Berthiaume F, Tompkins RG, Yarmush ML (1999) J Burn Care Rehabil 20:292 CrossRefGoogle Scholar
  38. 38.
    Martz E, Phillips HM, Steinberg MS (1974) J Cell Sci 16:401 Google Scholar
  39. 39.
    Palecek SP, Loftus JC, Ginsberg MH, Lauffenburger DA, Horwitz AF (1997) Nature (London) 385:537 CrossRefGoogle Scholar
  40. 40.
    Bhatia SN, Yarmush ML, Toner M (1997) J Biomed Mater Res 34:189 CrossRefGoogle Scholar
  41. 41.
    Ryan PL, Foty RA, Kohn J, Steinberg MS (2001) Proc Natl Acad Sci USA 98:4323 CrossRefGoogle Scholar
  42. 42.
    Obradovic B, Carrier RL, Vunjak-Novakovic G, Freed LE (1999) Biotechnol Bioeng 63:197 CrossRefGoogle Scholar
  43. 43.
    Ratcliffe A, Niklason LE (2002) Ann NY Acad Sci 961:210 CrossRefGoogle Scholar
  44. 44.
    Patel SD, Miller WM, Winter JN, Papoutsakis ET (2000) Cytotherapy 2:267 CrossRefGoogle Scholar
  45. 45.
    Evans ME, Jones DP, Zeigler TR (2003) J Nutr 133:3065 Google Scholar
  46. 46.
    Franek F (1995) Biotech Bioeng 45:86 CrossRefGoogle Scholar
  47. 47.
    Furue M, Koshika S, Okamoto T, Asashima M (2000) In Vitro Cell Dev Biol Anim 36:287 CrossRefGoogle Scholar
  48. 48.
    Mastrangelo AJ, Betenbaugh MJ (1998) Trends Biotechnol 16:88 CrossRefGoogle Scholar
  49. 49.
    Washizu J, Berthiaume F, Chan C, Tompkins RG, Toner M, Yarmush ML (2000) J Surg Res 93:237 CrossRefGoogle Scholar
  50. 50.
    Minuth WW, Sittinger M, Kloth S (1998) Cell Tissue Res 291:1 Google Scholar
  51. 51.
    Van Den Dolder J, Bancroft G, Sikavitsas V, Spauwen P, Jansen J, Mikos A (2003) J Biomed Mater Res 64A:235 CrossRefGoogle Scholar
  52. 52.
    Torok E, Pollok JM, Ma PX, Kaufmann PM, Dandri M, Petersen J, Burda MR, Kluth D, Perner F, Rogiers X (2001) Cells Tissues Organs 169:34 Google Scholar
  53. 53.
    Dar A, Shachar M, Leor J, Cohen S (2002) Biotechnol Bioeng 80:305 CrossRefGoogle Scholar
  54. 54.
    Wiedmann-Al-Ahmad M, Gutwald R, Lauer G, Hubner U, Schmelzeisen R (2002) Biomaterials 23:3319 CrossRefGoogle Scholar
  55. 55.
    Godbey WT, Atala A (2002) Ann N Y Acad Sci 961:10 CrossRefGoogle Scholar
  56. 56.
    Jones JG, Carvalho RA, Franco B, Sherry AD, Malloy CR (1998) Anal Biochem 263:39 CrossRefGoogle Scholar
  57. 57.
    Lessard P (1996) Nat Biotechnol 14:1654 CrossRefGoogle Scholar
  58. 58.
    Yang YT, Bennett GN, San KY (1998) Elec J Biotech 1:134 CrossRefGoogle Scholar
  59. 59.
    Bergman RN, Van Citters GW, Mittelman SD, Dea MK, Hamilton-Wessler M, Kim SP, Ellmerer M (2001) J Investig Med 49:119 CrossRefGoogle Scholar
  60. 60.
    Kakela R, Kinnunen S, Kakela A, Hyvarinen H, Asikainen J (2001) J Toxicol Environ Health A 64:427 CrossRefGoogle Scholar
  61. 61.
    Crawford JM, Blum JJ (1983) Biochem J 212:595 Google Scholar
  62. 62.
    Rabkin M, Blum JJ (1985) Biochem J 225:761 Google Scholar
  63. 63.
    Katz J, Lee WN, Wals PA, Bergner EA (1989) J Biol Chem 264:12994 Google Scholar
  64. 64.
    Katz J, Wals PA, Lee WN (1991) Proc Natl Acad Sci USA 88:2103 CrossRefGoogle Scholar
  65. 65.
    Yang D, Brunengraber H (2000) J Nutr 130:991S Google Scholar
  66. 66.
    Schilling CH, Schuster S, Palsson BO, Heinrich R (1999b) Biotechnol Prog 15:296 Google Scholar
  67. 67.
    Nielsen J (1998) Biotechnol Bioeng 58:125 CrossRefGoogle Scholar
  68. 68.
    Stephanopoulous G, Aristidou AA, Nielsen J (1998) Metabolic engineering. Academic, San Diego, CA, p 203 CrossRefGoogle Scholar
  69. 69.
    Sedlak M, Ho NWY (2004) Appl Biochem Biotech 114:403 CrossRefGoogle Scholar
  70. 70.
    Sonderegger M, Schuemperil M, Sauer U (2004) Appl Environ Microbiol 70:2892 CrossRefGoogle Scholar
  71. 71.
    Jeffrey FM, Storey CJ, Sherry AD, Malloy CR (1996) Am J Physiol 271:E788 Google Scholar
  72. 72.
    Large V, Brunengraber H, Odeon M, Beylot M (1997) Am J Physiol 272:E51 Google Scholar
  73. 73.
    Jucker BM, Lee JY, Shulman RG (1998) J Biol Chem 273:12187 CrossRefGoogle Scholar
  74. 74.
    Jones JG, Naidoo R, Sherry AD, Jeffrey FMH, Cottam GL, Malloy CR (1997) FEBS Lett 412:131 CrossRefGoogle Scholar
  75. 75.
    Anousis N, Carvalho RA, Zhao P, Malloy CR, Sherry AD (2004) NMR Biomed 17:51 CrossRefGoogle Scholar
  76. 76.
    Arai K, Lee K, Berthiaume F, Tompkins RG, Yarmush ML (2001) Hepatology 34:360 CrossRefGoogle Scholar
  77. 77.
    Lee K, Berthiaume F, Stephanopoulos GN, Yarmush DM, Yarmush ML (2000) Metab Eng 2:312 CrossRefGoogle Scholar
  78. 78.
    Chan C, Berthiaume F, Lee K, Yarmush ML (2003) Biotechnol Bioeng 81:33 CrossRefGoogle Scholar
  79. 79.
    Vallino JJ, Stephanopoulos G (1993) Biotechnol Bioeng 41:633 CrossRefGoogle Scholar
  80. 80.
    Bangalore AS, Shaffer RE, Small GW (1996) Anal Chem 68:4200 CrossRefGoogle Scholar
  81. 81.
    Friedman N, Linial M, Nachman I, Pe'er D (2000) J Comp Bio 7:601 CrossRefGoogle Scholar
  82. 82.
    Li Z, Chan C (2004) J Biol Chem 279:27124 CrossRefGoogle Scholar
  83. 83.
    Li Z, Chan C (2004) FASEB J 18:746 CrossRefGoogle Scholar
  84. 84.
    Dillon WR, Goldstein M (1984) Multivariate analysis: Methods and applications. Wiley, New York, p 587 Google Scholar
  85. 85.
    MacGregor JF, Jaeckle C, Kiparissides C, Koutoudi M (1994) Am Inst Chem Eng J 40:826 Google Scholar
  86. 86.
    Schölkopf B, Smola AJ, Müller KR (1998) Neural Comput 10:1299 CrossRefGoogle Scholar
  87. 87.
    Cortes C, Vapnik V (1995) Mach Learn 20:273 Google Scholar
  88. 88.
    Massart DL, Brereton RG, Dessy RE, Hopke PK, Spiegelman CH, Wegscheider W (1990) Chemometrics and intelligent laboratory systems, vol 1–5. Elsevier, Amsterdam Google Scholar
  89. 89.
    Baffi G, Martin EB, Morris AJ (1999) Comp Chem Eng 23:395 CrossRefGoogle Scholar
  90. 90.
    Li Z, Chan C (2004) Trends Biotechnol 22:381 CrossRefGoogle Scholar
  91. 91.
    Liao JC, Boscolo R, Yang YL, Tran LM, Sabatti C, Roychowdhury VP (2003) Proc Natl Acad Sci USA 100:15522 CrossRefGoogle Scholar
  92. 92.
    Nguyen DV, Rocke DM (2002) Bioinformatics 18:39 CrossRefGoogle Scholar
  93. 93.
    Pe'er D, Regev A, Elidan G, Friedman N (2001) Bioinformatics 17, Supl.1:s215 Google Scholar
  94. 94.
    Freed LE, Vunjak-Novakovic G (2000) Principles of tissue engineering, 2nd edn. R.G. Academic, San Diego, CA, p 143 CrossRefGoogle Scholar
  95. 95.
    Farmer WR, Liao JC (2000) Nature Biotechnol 18:533 CrossRefGoogle Scholar
  96. 96.
    Schilling CH, Edwards JS, Palsson BO (1999a) Biotechnol Prog 15:288 Google Scholar
  97. 97.
    Alter O, Brown PO, Botstein D (2000) Proc Natl Acad Sci USA 97:10101 CrossRefGoogle Scholar
  98. 98.
    Chan C, Hwang DH, Stephanopoulos GN, Yarmush ML, Stephanopoulos G (2003) Biotechnol Prog 19:580 CrossRefGoogle Scholar
  99. 99.
    Holter NS, Mitra M, Maritan A, Cieplak M, Banavar JR, Fedoroff NV (2000) Proc Natl Acad Sci USA 97:8409 CrossRefGoogle Scholar
  100. 100.
    Datta S (2001) Gene Expr 9:249 Google Scholar
  101. 101.
    Hwang DH, Stephanopoulos G, Chan C (2004) Bioinformatics 20:487 CrossRefGoogle Scholar
  102. 102.
    Xiong M, Fang X, Zhao J (2001) Genome Res 11:1878 Google Scholar
  103. 103.
    Pachence JM, Kohn J (1997) In: Lanza RP, Langer R, Chick WL (eds) Principles of tissue engineering, 1st edn. Academic, San Diego, CA, p 273 Google Scholar
  104. 104.
    Thomoson RC, Yaszemski MJ, Mikos AG (1997) In: Lanza RP, Langer R, Chick WL (eds) Principles of tissue engineering, 1st edn. Academic, San Diego, CA, p 263 Google Scholar
  105. 105.
    Hosmer D, Stanley L (1989) Applied logistic regression. Wiley, New York Google Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2005

Authors and Affiliations

  1. 1.Department of Chemical Engineering and Material ScienceMichigan State UniversityEast LansingUSA

Personalised recommendations