Publications

Refereed

  1. IY Zhbannikov, JA Foster (2015) MetAmp: Analysis high-throughput microbial amplicon sequence data with multiple markers. Bioinformatics, 10.1093/bioinformatics/btv049
  2. DL Beck, C Daniels, JA Foster (2014) Seed: A microbial community visualization tool. Bioinformatics, pii: btu693
  3. J Carter, DL Beck, H Williams, G Dozier, JA Foster (2014) GA-Based Selection of Vaginal Microbiome Features Associated with Bacterial Vaginosis. Genetic and Evolutionary Computation Conference (GECCO), 2014, Vancouver, BC Canada
  4. YS Baker, R Agrawal, JA Foster, DL Beck, G Dozier (2014) Detecting Bacterial Vaginosis Using Machine Learning . ACM Southeast Conference, Springer
  5. JA Foster (2014) Microbial diversity, bar-coding approaches. Encyclopedia of Metagenomics, Springer
  6. YS Baker, R Agrawal, JA Foster, DL Beck, G Dozier (2014) Applying Machine Learning Techniques in Detecting Bacterial Vaginosis. International Conference on Machine Learning and Cybernetics (ICMLC), Lanzhou, China
  7. DL Beck, JA Foster (2014) Machine learning techniques accurately classify microbial communities by bacterial vaginosis characteristics. PLOS One, 9(2):e87830
  8. KA Pattin, AC Greene, RB Altman, LE Hunter, DA Ross, JA Foster, JH Moore (2014) Building the next generation of quantitative biologists. Pacific Symposium in Biocomputing, 2014
  9. JA Foster (2013) Introduction to special section: Best of EuroGP/EvoBIO. Genetic Programming and Evolvable Machines, 14:429-430, DOI 10.1007/s10710-013-9194-9
  10. IY Zhbannikov, M Settles, SS Hunter, JA Foster (2013) SlopMap: a software application tool for quick and flexible identification of similar sequences using exact k-mer matching. Journal of Data Mining in Genomics and Proteomics, 4(3):1-6. doi: 10.4172/2153-0602.1000133
  11. HK Allen, J Bunge, JA Foster, DO Bayles, BA Stanton (2013) Estimation of viral species richness from shotgun metagenomes using a frequency count approach. Microbiome, 1(5), DOI: 10.1186/2049-2618-1-5
  12. JC Madan, D Koestler, BA Stanton, L Davidson, JH Moore, M Sogin, MR Karagas, H Morrison, T Hampton, PE Palumbo, M Guill, JA Foster, PH Hibbard (2012) Serial analysis of the gut and respiratory microbiome in CF in infancy: the interaction between intestinal and respiratory tracts and the impact of nutritional exposures. eBio, 3(4)::e00251-12, 10.1128/mBio.00251-12
  13. WK Copeland, V Krishnan, DL Beck, M Settles, JA Foster, K-C Cho, MD Day, R Hickey, UME Schütte, X Zhou, CJ Williams, LJ Forney, Z Abdo (2012) mcaGUI: Microbial community analysis R-GUI. Bioinformatics, 28(16):21989. doi: 10.1093/bioinformatics/bts338
  14. JA Foster, J Bunge, J Gilbert, JH Moore (2012) Measuring the microbiome: Perspectives on advances in DNA-based techniques for exploring microbial life. Briefings in Bioinformatics, 4(13):420-9, 10.1093/bib/bbr080
  15. J Bunge, L Woodard, D Bohning, HK Allen, JA Foster, S Conolly (2012) Estimating population diversity with CatchAll. Bioinformatics, 28(7):1045-47, DOI: 10.1093/bioinformatics/bts075
  16. JC Madan, R Cowper-Sallari, D Saxena, L Davidson, GA O\'Toole Jr, JH Moore, M Sogin, JA Foster, PE Palumbo, PL Hibbard (2012) Gut microbial colonization in premature neonates predicts neonatal sepsis . Archives of Disease in Childhood, 10.1136/fetalneonatal-2011-301373, PMID: 22562869, PMCID: PMC3724360
  17. J Bunge, D Bohning, HK Allen, JA Foster (2012) Estimating population diversity with unreliable low frequency counts. Pacific Symposium on Biocomputing, 203-212
  18. JA Foster, JH Moore, J Gilbert, J Bunge (2011) Microbiome studies: analytical tools and techniques. Pacific Symposium in Biocomputing., RB Altman, AK Dunke, L Hunter, TA Murray (eds)
  19. KM Hunt, JA Foster, LJ Forney, UME Sch@tte, DL Beck, Z Abdo, LK Fox, JE Williams, MK McGuire, MA McGuire (2011) Characterization of the diversity and temporal stability of bacterial communities in human milk. PLOS One. 6(6) e21313, doi:10.1371/journal.pone
  20. V Norris, A Zemirline, P Amar, JN Audinot, P Ballet, B-E Jacob, G Bernot, G Beslon, A Cabin, E Fanshon, JL Giavitto, N Glade, P Greussay, Y Grondin, JA Foster, G Hutzler, J Jost, F Képès, O Michel, F Molina, J Signorini, P Stano, AR Thierry (2011) Computing with bacterial constituents, cells and populations: from bioputing to bactoputing. Theory Biosci, 130(3):211-228
  21. MD Day, DL Beck, JA Foster (2011) Microbial communities as experimental units. Bioscience, 61(5):398-406
  22. DL Beck, M Settles, JA Foster (2011) OTUbase: an R infrastructure package for operational taxonomic unit data. Bioinformatics, 27(12):1700-1701, doi: 10.1093/bioinformatics/btr196
  23. UME Schette, Z Abdo, JA Foster, J Ravel, J Bunge, B Solheim, LJ Forney (2010) Bacterial diversity in a glacier foreland of the high arctic. Molecular Ecology, 19(1):41-53. DOI 10.1111j
  24. JA Foster, SM Krone, LJ Forney (2009) Application of Ecological Network Theory to the Human Microbiome. Interdisciplinary Perspectives on Infection Diseases. 2009:6pp, doi:10.1155/2009/839501.
  25. X Zhou, CJ Brown, Z Abdo, CC Davis, MA Hansmann, P Joyce, JA Foster, LJ Forney (2007) Differences in the composition of vaginal microbial communities found in healthy Caucasian and black women. ISME Journal, 1(2):121-33. Epub 2007 May 10. PMID: 18043622
  26. M Keitzer, JA Foster (2007) Crossover Bias in Genetic Programming. Proceedings of the 10th European Conference on Genetic Programming, LNCS 4445:33-44.
  27. C Shyu, T Soule, SJ Bent, JA Foster, LJ Forney (2006) MiCA: A Web-Based Tool for the Analysis of Microbial Communities Based on Terminal-Restriction Fragment Length Polymorphisms (T-RFLP). Journal of Microbial Ecology. 53(4):562-570, PMID 17406775.
  28. W Banzhaf, G Beslon, S Christensen, JA Foster, F K@p@s, V Lefort, JF Miller, M Radman, JJ Ramsden (2006) From artificial evolution to computational evolution: a research agenda. Nature Reviews Genetics, 7(9):729-735
  29. LJ Forney, JA Foster, W Ledger (2006) The vaginal flora of healthy women is not always dominated by Lactobacillus sp Journal of Infectious Disease. Journal of Infectious Disease , 195:1468-1469
  30. J Evans, LJ Sheneman, JA Foster (2006) Relaxed neighbor joining: a fast distance-based phylogenetic tree construction method. Journal of Molecular Evolution. 62(6):785-92, PMID: 16752216.
  31. LJ Sheneman, J Evans, JA Foster (2006) Clearcut: the reference implementation for the relaxed neighbor joining phylogenetic tree construction method. Bioinformatics. 15(22):2823-4, PMID: 16982706.
  32. LJ Sheneman, JA Foster (2004) Evolving better multiple sequence alignments. Proc. Genetic and Evolutionary Computing Conference (GECCO), Springer Verlag, K Deb et al., eds, Lecture Notes in Computer Science, Volume 3102, pp, 449-460.
  33. M Harrison, JA Foster (2004) Improving the Survivability of a Simple Evolved Circuit through Co-evolution. Proc. NASA/DoD Conference on Evolvable Hardware, IEEE Press, R Zebulum , D Gwaltney, G Horbny, D Keymeulen, J Lohn, A Stoica, Eds, pp 123-129.
  34. W Banzhaf, JA Foster (2004) Special Issue on Biological Applications of Genetic and Evolutionary Computation. Genetic Programming and Evolvable Machines. Kluwer, 5(2).
  35. C Shyu, JA Foster (2004) Evolving consensus sequence for multiple sequence alignment with a genetic algorithm. Proc Genetic and Evolutionary Computing Conference (GECCO),
  36. C Shyu, LJ Sheneman, JA Foster (2004) Evolutionary computation for multiple sequence alignment. Genetic Programming and Evolvable Machines. Kluwer, 5(2) pp 121-144.
  37. M Harrison, JA Foster (2004) Co-evolving faults to improve the fault tolerance of sorting networks. Proc. European conference on genetic programming, Springer Verlag, Lecture Notes in Computer Science, M Keijzer, UM. O@Reilly, SM. Lucas, E Costa and T Soule, Eds, Volume 3003, pp 57-66.
  38. K Imamura, T Soule, RB Heckendorn, JA Foster (2003) Behavioral Diversity and a Probabilistically Optimal GP Ensemble. Genetic Programming and Evolvable Machines, Kluwer, 4:235-253.
  39. R Shepherd, JA Foster (2003) Inherent fault tolerance in evolved sorting networks. Proc. Genetic and Evolutionary Computing Conference (GECCO). Springer-Verlag, p. 461, July
  40. K Imamura, RB Heckendorn, T Soule, JA Foster (2002) N-version genetic programming via fault masking, Genetic Programming: Proc. 5th European Conference, EuroGP 2002, Lecture Notes in Computer Science, 2278, Springer-Verlag, 172-181.
  41. MM Meysenburg, D Hoelting, D McElvain, JA Foster (2002) A genetic algorithm-specific test of random generator quality. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO). Morgan Kaufmann, p 691.
  42. MM Meysenburg, D Hoelting, D McElvain, JA Foster (2002) How random generator quality impacts genetic algorithm performance. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO), Morgan Kaufmann, pp, 480-483.
  43. C Shyu, JA Foster, LJ Forney (2002) Electronic Polymerase Chain Reaction (EPCR) Search Algorithm. Proc. IEEE 1st Bioinformatics Conference. p, 338.
  44. K Imamura, JA Foster (2002) Abstention reduces errors: decision abstaining N-version genetic programming. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO), Morgan Kaufmann, 796-803.
  45. C Shyu, JA Foster, K Liao, SJ Bent, K Sale, LJ Forney, T Soule (2002) MiCA: Microbial Community Analysis. Proc. IEEE 1st Bioinformatics Conference. p, 341.
  46. K Imamura, JA Foster (2001) Fault-tolerant computing with N-version genetic programming. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO). Morgan Kaufmann, p 178.
  47. B Rylander, JA Foster (2001) Computational complexity and genetic algorithms. Advances in Fuzzy Systems and Evolutionary Computation. Artificial Intelligence Series, E Nikos Mastorakis, ed., World Scientific and Engineering Society Press, pp, 248-253.
  48. B Rylander, T Soule, JA Foster (2001) Computational complexity, genetic programming and implications. Genetic Programming: Proc. 4th European Conference, EuroGP 2001, Lecture Notes in Computer Science, 2038, Springer-Verlag, 348-360.
  49. JA Foster (2001) Discipulus: the first commercial genetic programming system, invited publication in J. Genetic Programming and Evolvable Hardware. 2:2, pp, 201@203.
  50. B Rylander, T Soule, JA Foster, J Alves-Foss (2001) Quantum evolutionary programming. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO). Morgan Kaufmann, pp. 1005-1011, Morgan Kaufmann.
  51. JA Foster (2001) Evolutionary computation. Nature Genetics Reviews, 2:428-436.
  52. J Determan, JA Foster (2001) A genetic algorithm for expert system rule generation. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO), Morgan Kaufmann, p 757.
  53. K Imamura, JA Foster (2001) Fault-tolerant hardware through n-version genetic programming. Proc. 5th World Multiconference on Systemics, Cybernetics and Informatics (SCI 2001).
  54. B Rylander, JA Foster (2001) Genetic algorithms and hardness. Advances in Fuzzy Systems and Evolutionary Computation. Artificial Intelligence Series, E Nikos Mastorakis, ed., World Scientific and Engineering Society Press. pp, 323-329.
  55. HS Snevily, JA Foster (2000) The 2-pebbling property and a conjecture of graham\'s. Graphs and Combinatorics, 16, pp, 231@344.
  56. J Dumoulin, S McGrew, J Frenzel, JA Foster (2000) Special purpose image convolution with evolvable hardware. Proc. Int. Workshop on Evolvable Image and Digital Signal Processing, Lecture notes in computer science no. 1803, Eds. Stefano Cagnoni, et al. Springer-Verlag, pp, 1@11.
  57. GKM Goh, JA Foster (2000) Evolving Molecules for Drug Design Using Genetic Algorithms via Molecular Trees. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO), Morgan Kaufmann, pp, 27@33.
  58. K Imamura, JA Foster, A Krings (2000) The test vector problem and limitations to evolving digital circuits. Proc. NASA/DoD Workshop on Evolvable Hardware (EH), IEEE Press, pp, 75@80.
  59. B Rylander, T Soule, JA Foster (2000) Quantum evolutionary computation. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO). Morgan Kaufmann. p, 373.
  60. B Rylander, JA Foster (2000) GA hard problems. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO). Morgan Kaufmann. p, 367.
  61. J Masner, J Cavalieri, J Frenzel, JA Foster (2000) Size versus robustness in evolved sorting networks: is bigger better? Proc. NASA/DoD Workshop on Evolvable Hardware (EH), IEEE Press, pp, 81@90.
  62. J Masner, J Cavalieri, J Frenzel, JA Foster (1999) Representation and robustness for evolved sorting networks. Proc. NASA/DoD Workshop on Evolvable Hardware (EH), IEEE press, pp, 255@261.
  63. B Harvey, D Frincke, JA Foster (1999) Toward byte code genetic programming. Proc. Int. Congress on Genetic and Evol. Comp. (CEC). p, 1234.
  64. MM Meysenburg, JA Foster (1999) Random number generator and GP performance. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO), Morgan Kaufmann, pp, 1121@1126.
  65. A Morris, JA Foster, FE Petry (1999) Providing support for multiple collection types in a fuzzy object oriented spatial data model. Proc. Int. Conf. North American Fuzzy Inf. Proc. Soc. (AFIPS), IEEE Press.
  66. WB Langdon, T Soule, R Poli, JA Foster (1999) The evolution of size and shape. Advances in Genetic Programming (AIGP), Lee Spector, WB Langdon, Una-May O@Reilly and Peter J Angeline, eds. MIT Press, pp, 162@191.
  67. MM Meysenburg, JA Foster (1999) Random number generator and GA performance revisited. Proc. Int. Conf. On Genetic and Evol. Comp. (GECCO), Morgan Kaufmann, pp, 425@432.
  68. J Determan, JA Foster (1999) Using chaos in genetic algorithms. Proc. Int. Congress on Evol. Comp. (CEC), IEEE press, pp, 2094@2101.
  69. J Marconi, JA Foster (1998) Finding cliques in Keller graphs with genetic algorithms. Proc. Int. Conf. On Evolutionary Computing (ICEC), DB. Fogel and PJ. Angeline, eds., IEEE Press, pp, 650-655.
  70. T Soule, JA Foster (1998) Limiting code growth in genetic programming. J Evolutionary Computation, 6:4, 293@310.
  71. JS Shoaf, JA Foster (1998) The efficient set GA for stock portfolios. Proc. Int. Conf. On Evolutionary Computing (ICEC), DB. Fogel and PJ. Angeline, eds., IEEE Press, pp, 354-359.
  72. T Soule, JA Foster (1998) Removal bias: a new cause of code growth in tree based evolutionary programming. Proc. Int. Conf. On Evolutionary Computing (ICEC), DB. Fogel and PJ. Angeline, eds., IEEE Press, pp, 781-786.
  73. WF Danielson III, JA Foster, D Frincke (1998) GABSyS: Using genetic algorithms to breed a combustion engine. Proc. Int. Conf. On Evolutionary Computing (ICEC), DB. Fogel and PJ. Angeline, eds., IEEE Press, pp, 259-264.
  74. T Soule, JA Foster (1997) Genetic algorithm hardness measures applied to the maximum clique problem. Proc. Int. Conf. On Genetic Algorithms (ICGA), ed. B@ck, Morgan Kaufmann, pp, 81-88.
  75. T Soule, JA Foster (1997) Code size and depth flows in genetic programming. Proc. Int. Conf. On Genetic Programming (GP), Koza, Goldberg, Fogel and Riolo (eds), Morgan Kaufmann, pp, 313-320.
  76. MM Meysenburg, JA Foster (1997) The effect of the quality of pseudo-random number generators on the performance of a simple genetic algorithm. Proc. Int. Conf. On Genetic Algorithms (ICGA), ed. B@ck, Morgan Kaufmann, pp, 276-282.
  77. T Soule, JA Foster, J Dickinson (1996) Code growth in genetic programming. Proc. Genetic Programming (GP), Koza, Goldberg, Fogel and Riolo ed.s, Morgan Kaufmann, pp, 215-223.
  78. J Clough, JA Foster, M Barnett, HA Wichman (1996) Computer simulation of transposable element evolution: Random template and strict master models. J Mol. Evol., 42:52-58.
  79. T Soule, JA Foster, J Dickinson (1996) Using genetic programming to approximate maximum cliques. Proc. Genetic Programming (GP), Koza, Goldberg, Fogel and Riolo ed.s, Morgan Kaufmann, pp, 400-405.
  80. JS Shoaf, JA Foster (1996) A Genetic algorithm solution to the efficient set problem: a technique for portfolio selection based on the Markowitz model. Proc. of the 1996 Annual Meeting, Decision Sciences Institute. Vol. II, pages 571-573.
  81. JA Foster (1995) Exploring the polynomial hierarchy with generic sets. J Computing and Info., pages 166-183, July
  82. JA Foster, PW Oman, K Van Houten, W Zhu (1995) Using self-delimiting strings to represent trees. Congressus Numerantium, 107:5-22, July
  83. JA Foster, M Barnett, K Van Houten, LJ Sheneman (1995) (In-)Formal methods: Teaching program derivation via the Moore method. Computer Science Education, 6(1), pp. 67-91, July
  84. JA Foster (1993) The generic oracle hypothesis is false. Info. Proc. Letters, 45:59-62, 26 February
  85. JA Foster, PW Oman, K Van Houten (1993) A highly compact representation of tree structures (abstract). Proceedings of the Data Compression Conference. p 453, March
  86. PW Oman, K Van Houten, JA Foster (1993) Representing arbitrary trees as self-delimiting binary strings. Congressus Numerantium, 96:47-56, December

Peer Reviewed

  1. C Shyu, JA Foster (2004) Nonparametric Statistical Approaches for Inferring Microbial Community Structures Based on Terminal Restriction Fragment Length Polymorphisms (T-RFLP). Pacific Symposium on Biocomputing,
  2. C Shyu, JA Foster (2004) Characterization of Microbial Diversity Based on T-RFLP Data with Nonparametric Statistics. Proc, American Society of Microbiologists (ASM).
  3. LJ Sheneman, JA Foster (2004) Evolving Better Alignments. Pacific Symposium on Biocomputing,
  4. C Shyu, JA Foster (2004) Performance Comparison of Multiple Sequence Alignment Programs Using Nonparametric Statistics. Research in Computational Biology (RECOMB),
  5. C Shyu, JA Foster (2003) Inferring Microbial Community Structures with Dynamic Programming and Bayesian Statistics, Proc. American Society of Microbiologists (ASM), May 18-22,
  6. C Shyu, JA Foster, K Liao, SJ Bent, K Sale, LJ Forney, T Soule (2002) Computational Methods for the Analysis of Microbial Community Structure and Composition. Proc. American Society of Microbiologists (ASM). p, 461.
  7. C Shyu, JA Foster, K Liao, SJ Bent, K Sale, LJ Forney, T Soule (2002) Microbial Community Analysis (MiCA): Web-Based Computational Tools for the Analysis of Microbial Community Structure and Composition Based on Terminal Restriction Fragment Length Polymorphism (T-RFLP) of 16S rDNA genes. Proc. American Society of Microbiologists (ASM), p, 462.
  8. LW Lass, DC Thill, B Shafii, W Price, JA Foster (1998) . Protected spatial data exchange from multiple data sources using the World Wide Web, Proceedings of the 1998 meeting of the Weed Sciences Society of America.
  9. B Harvey, JA Foster, D Frincke (1998) Byte code Genetic Programming. Late Breaking Papers at GP98, J. Koza, ed., pp 59-63.
  10. JA Foster (1992) The generic oracle hypothesis fails. In WW Koczkodaj, PE Lauer, and AA Toptsis, editors, International Conference on Computing and Information. pages 75-78. IEEE, May
  11. JA Foster (1992) Structure in complexity theory. Bulletin of the European Association for Theoretical Computer Science. 46:239-47, February
  12. JA Foster (1987) Differential geometry on fractal manifolds. The Journal of Chaos and Graphics, 2(30), August
  13. JA Foster (1979) The greatness which was Greece. Inquiry, 1(1).
  14. JA Foster (1978) The formal incomprehensibility of the creation stories in genesis. Illinois Libertarian,

Book Chapter

  1. C Shyu, JA Foster (2004) Nonparametric Statistical Approaches for Inferring Microbial Community Structures Based on Terminal Restriction Fragment Length Polymorphisms (T-RFLP). Pacific Symposium on Biocomputing,
  2. C Shyu, JA Foster (2004) Characterization of Microbial Diversity Based on T-RFLP Data with Nonparametric Statistics. Proc, American Society of Microbiologists (ASM).
  3. LJ Sheneman, JA Foster (2004) Evolving Better Alignments. Pacific Symposium on Biocomputing,
  4. C Shyu, JA Foster (2004) Performance Comparison of Multiple Sequence Alignment Programs Using Nonparametric Statistics. Research in Computational Biology (RECOMB),
  5. C Shyu, JA Foster (2003) Inferring Microbial Community Structures with Dynamic Programming and Bayesian Statistics, Proc. American Society of Microbiologists (ASM), May 18-22,
  6. C Shyu, JA Foster, K Liao, SJ Bent, K Sale, LJ Forney, T Soule (2002) Computational Methods for the Analysis of Microbial Community Structure and Composition. Proc. American Society of Microbiologists (ASM). p, 461.
  7. C Shyu, JA Foster, K Liao, SJ Bent, K Sale, LJ Forney, T Soule (2002) Microbial Community Analysis (MiCA): Web-Based Computational Tools for the Analysis of Microbial Community Structure and Composition Based on Terminal Restriction Fragment Length Polymorphism (T-RFLP) of 16S rDNA genes. Proc. American Society of Microbiologists (ASM), p, 462.
  8. LW Lass, DC Thill, B Shafii, W Price, JA Foster (1998) . Protected spatial data exchange from multiple data sources using the World Wide Web, Proceedings of the 1998 meeting of the Weed Sciences Society of America.
  9. B Harvey, JA Foster, D Frincke (1998) Byte code Genetic Programming. Late Breaking Papers at GP98, J. Koza, ed., pp 59-63.
  10. JA Foster (1992) The generic oracle hypothesis fails. In WW Koczkodaj, PE Lauer, and AA Toptsis, editors, International Conference on Computing and Information. pages 75-78. IEEE, May
  11. JA Foster (1992) Structure in complexity theory. Bulletin of the European Association for Theoretical Computer Science. 46:239-47, February
  12. JA Foster (1987) Differential geometry on fractal manifolds. The Journal of Chaos and Graphics, 2(30), August
  13. JA Foster (1979) The greatness which was Greece. Inquiry, 1(1).
  14. JA Foster (1978) The formal incomprehensibility of the creation stories in genesis. Illinois Libertarian,

Book

  1. S Silva, JA Foster (2012) Special Best Papers Issue European Conference on Genetic Programming. Genetic Programming and Evolvable Machines,
  2. S Silva, JA Foster, M Nicolau, P Machado, M Giacobini (2011) European Conference on Genetic Programming. European Conference on Genetic Programming (EuroGP), Editor, Springer Verlag LNCS 6621, ISBN 978-3-642-20406-7
  3. E Cantu-Paz, JA Foster (2005) Special issue on best papers from GECCO. Genetic and Evolutionary Computation Conference, Guest editor, special issue of best papers
  4. W Banzhaf, JA Foster (2004) GPEM Special issue on biological applications of genetic and evolutionary computation. Genetic and Evolutionary Computation Conference, Guest editor, special issue of biological applications
  5. E Cantu-Paz, JA Foster (2003) Genetic and Evolutionary Computation. Genetic and Evolutionary Computation Conference (GECCO), proceedings, Springer Verlag LNCS 2723 and 2724
  6. JA Foster, E Lutton, JF Miller, C Ryan, AGB Tettamanzi (2002) European Conference on Genetic Programming. European Conference on Genetic Programming (EuroGP), Editor, Springer Verlag LNCS 2278, ISBN 3-540-43378-3

Technical Reports

  1. T Soule, JA Foster, J Dickinson (1996) Using genetic programming to find maximum cliques. Technical Report LAL 96-3, University of Idaho, Moscow, ID 83844-1010, January
  2. T Soule, JA Foster, J Dickinson (1996) Limiting program size in genetic programming. Technical Report LAL 96-2, University of Idaho, Moscow, ID 83844-1010, January
  3. JA Foster, PW Oman, K Van Houten, W Zhu (1995) Using self delimiting strings to represent trees. Using self delimiting strings to represent trees. Technical report CS 92-06, U. of Idaho, October
  4. JA Foster (1995) The generic oracle hypothesis is false. Technical Report TR 92-04, University of Idaho, Department of Computer Science; Moscow, Id 83855, January
  5. JA Foster, S Fenner (1995) NPCVt c NPSVt$ if disjoint pairs of Co-NP sets are P-separable. Technical Report LAL 95-01, University of Idaho, Moscow, ID 83844-1010, January
  6. JA Foster (1995) Genetic algorithm hardness and approximation complexity: A research agenda. Technical Report TR-LAL-95-04, University of Idaho, Department of Computer Science, Moscow, ID 83844-1010, May
  7. J Clough, RW Ireland, M Barnett, JA Foster (1995) Transposable element simulator: Technical documentation. Technical Report LAL 95-11, University of Idaho, Dept. of Computer Science, Moscow, ID 83844-1010, August
  8. JA Foster, T Soule (1995) Using genetic algorithms to find maximum cliques. Technical Report LAL 95-12, University of Idaho, Moscow, ID 83844-1010, August
  9. JA Foster, M Barnett, K Van Houten, LJ Sheneman (1995) (In-)Formal methods: Teaching program derivation via the Moore method. Technical Report LAL 94-01, University of Idaho, Moscow, ID 83844-1010, September
  10. HS Snevily, JA Foster (1995) The 2-pebbling property and a conjecture of graham\'s. Technical Report LAL 95-03, University of Idaho, Moscow, ID 83844-1010, September
  11. JA Foster (1991) A note on relativized counting classes. Technical Report TR 91-10, University of Idaho, October
  12. JA Foster (1991) Dense properties and generic witnesses for PH. Technical Report TR 91-09, University of Idaho, Department of Computer Science; Moscow, Id 83855, January
  13. JA Foster (1989) Models of space-bounded relativization. Technical Report CS-JAF-89-2, Illinois Institute of Technology.
  14. JA Foster (1989) Introduction to predicate logic. Technical Report CS-JAF-89-1, Illinois Institute of Technology.
  15. JA Foster (1989) My work at IIT. Technical Report CS-JAF-89-3, Illinois Institute of Technology.
  16. JA Foster (1988) Computational complexity. Technical Report TR92-0013, International Business Machines.
  17. JA Foster (1988) Context sensitive grammars are closed under complementation. Technical Report TR92-0014, International Business Machines.
  18. JA Foster (1987) The data mapping program: An early entity relationship database. Technical Report TR92-0011, International Business Machines.
  19. JA Foster (1987) A prisoner\'s dilemma with a divide and conquer solution. Technical Report TR92-0010, International Business Machines.
  20. JA Foster (1987) Tagproc: A grammar driven tag rewriter. Technical Report TR92-0012, International Business Machines.
  21. JA Foster (1987) Branch and bound versus backtracking. Technical Report TR92-0015, International Business Machines.
  22. JA Foster (1987) Searching and sorting with a 3-way compare. Technical Report TR92-0009, International Business Machines.
  23. JA Foster (1986) Trip report for pubtech \'86. Technical Report TR92-0004, International Business Machines, March
  24. JA Foster (1986) Conferencing with confdisk. Technical Report TR92-0005, International Business Machines.

Data and Software

  1. I Zhbannikov, JA Foster (Pending or In Press) MetAmp: microbial community analysis with multiple fingerprint sequenceas. ,
  2. DL Beck, C Daniels, JA Foster (Pending or In Press) Seed: A microbial community visualization tool. github,
  3. I Zhbannikov, M Settles, JA Foster (Mar 2014) SeqyClean as a novel approach in next generation sequencing cleaning. ,
  4. I Zhbannikov, M Settles, SS Hunter, JA Foster (Jun 2013) SlopMap: a software application tool for quick and flexible identification of similar sequences using exact k-mer matching. ,
  5. DL Beck, JA Foster (Jun 2011) OTUbase: an R infrastructure package for operational taxonomic unit data. ,
  6. C Shyu, JA Foster (Jun 2006) MICA: Microbial Community Analysis. ,
  7. LJ Sheneman, J Evans, JA Foster (Jun 2006) Clearcut: the reference implementation for the relaxed neighbor joining phylogenetic tree construction method. ,