Additional Information
Books
Keller JM, Liu D, Fogel GB (2016) Fundamentals of Computational Intelligence: Neural Networks, Fuzzy Systems, and Evolutionary Computation, Wiley-IEEE Press.
Fogel GB, Corne DW, Pan Y (2008) Computational Intelligence in Bioinformatics, Wiley-IEEE Press.
Fogel DB (2006) Evolutionary Computation: Toward a New Philosophy of Machine Intelligence, Wiley, John & Sons, Inc.
Michalewicz Z and Fogel DB (2004) How To Solve It: Modern Heuristics, Springer.
Fogel DB and Robinson C (2003) Computational Intelligence: The Experts Speak, Wiley-IEEE Press.
Fogel GB and Corne DW (2002) Evolutionary Computation in Bioinformatics, Morgan Kaufmann.
Fogel DB (2001) Blondie24: Playing at the Edge of AI, Morgan Kaufmann.
Fogel DB (2000) Evolutionary Computation: Principles and Practices for Signal Processing, SPIE Publications.
Fogel LJ (1999) Intelligence Through Simulated Evolution: Four Decades of Evolutionary Programming, Wiley-Interscience.
Fogel DB (1998) Evolutionary Computation: The Fossil Record, Wiley-IEEE Press.
Recent Publications
Lamers SL, Fogel GB, Nolan DJ, Barbier AE, Rose R, Singer EJ, Gonzalez-Perez MP, McGrath MS. (2019) "Emerging Patterns in HIV-1 gp120 Variable Domains in Anatomical Tissues in the Absence of a Plasma Viral Load." AIDS Res Hum Retroviruses. vol.. 35, no. 6, pp. 588‐596.
Lamers SL, Fogel GB, Liu ES, Barbier AE, Rodriguez CW, Singer EJ, Nolan DJ, Rose R, McGrath MS. (2018) "Brain-specific HIV Nef identified in multiple patients with neurological disease." J Neurovirol. vol. 24, no. 1, pp. 1‐15.
Lamers SL, Fogel GB, Liu ES, Nolan DJ, Salemi M, Barbier AE, Rose R, Singer EJ, McGrath MS. (2017) "Predicted coreceptor usage at end-stage HIV disease in tissues derived from subjects on antiretroviral therapy with an undetectable plasma viral load." Infect Genet Evol. vol. 51, pp. 194‐197.
Alotaibi M, Reyes BD, Le T, Luong P, Valafar F, Metzger RP, Fogel GB, Hecht D. (2017) "Structure-based analysis of Bacilli and plasmid dihydrofolate reductase evolution." J Mol Graph Model. Vol. 71, pp. 135‐153.
Lamers SL, Rose R, Nolan DJ, Fogel GB, Barbier AE, Salemi M, McGrath MS. (2016) "HIV-1 Evolutionary Patterns Associated with Metastatic Kaposi's Sarcoma during AIDS." Sarcoma. 2016: pp. 4510483.
Lamers SL, Rose R, Maidji E, Agsalda-Garcia M, Nolan DJ, Fogel GB, Salemi M, Garcia D, Bracci P, Yong W, Commins D, Said J, Khanlou N, Hinkin C, Valdes Sueiras M, Mathisen G, Donovan S, Shirimizu B, Stoddart C, McGrath MS, Singer EJ (2016) “HIV DNA is Frequently Present Within Pathogenic Tissues Evaluated at Autopsy from cART Treated Patients with Undetectable Viral Load,” Journal of Virology, Vol. 90, no. 20, pp. 8968-83.
Lamers SL, Fogel GB, Liu ES, Salemi M, McGrath MS. (2016) "On the Physicochemical and Structural Modifications Associated with HIV-1 Subtype B Tropism Transition." AIDS Res Hum Retroviruses. Vol. 32, No. 8, pp. 829‐840.
Fogel GB, Lamers SL, Liu ES, Salemi M, McGrath MS (2015) “Identification of Dual-Tropic HIV-1 Using Evolved Neural Networks,” BioSystems, vol. 137, pp. 12-19.
Fogel GB, Kai ZS, Zargar S, Hinton A, Jones GA, Wong AS, Ficici SG, Lopez AD, King CC (2015) “MicroRNA Dynamics During Human Embryonic Stem Cell Differentiation to Pancreatic Endoderm.” Gene, vol. 574, no. 2, pp. 359-370.
Hinton A, Hunter S, Afrikanova I, Jones GA, Lopez AD, Fogel GB, Hayek A, King CC (2014) "sRNA-seq Analysis of Human Embryonic Stem Cells and Definitive Endoderm Reveal Differentially Expressed MicroRNAs and Novel isomiRs with Distinct Targets," Stem Cells, Vol. 32, No. 9, pp. 2360-72.
Lamers SL, Fogel GB, Nolan DJ, McGrath MS, Salemi M (2014) "HIV-Associated Neuropathogenesis: A Systems Biology Perspective for Modeling and Therapy," BioSystems, Vol. 119, pp. 53-61.
Lamers SL, Nolan DJ, Strickland SL, Prosperi MCF, Fogel GB, Goodenow MM, Salemi M (2013) "Longitudinal analysis of intra-host SIV recombination in varied tissues of the Rhesus macaque model for neuroAIDS," Journal of General Virology, Vol. 94, pp. 2469-79.
Hecht D, Fogel GB (2012) "Modeling the Evolution of Drug Resistance in Malaria," Journal of Computer-Aided Molecular Design, Vol. 26, pp. 1343-1353.
Lamers SL, Fogel GB, Singer RJ, Salemi M, Nolan DJ, Husentruyt LC, McGrath MS (2012) "HIV-1 nef in Macrophage-mediated Disease Pathogenesis," International Reviews of Immunology, Vol. 31, No. 6, pp. 432-450.
Hinton A, Hunter S, Reyes-Cava G, Fogel GB, King CC (2012) "From Pluripotency to Islets: miRNAs as Critical Regulators of Human Cellular Differentiation," Advances in Genetics, Vol. 79, pp. 1-34.
Sample Prior Publications
Hecht D and Fogel GB (2009) "A Novel In Silico Approach to Drug Discovery via Computational Intelligence," Journal of Chemical Information and Modeling, Vol. 49, pp. 1105-1121.
Fogel GB, Porto VW, Varga G, Dow ER, Craven AM, Powers DM, Harlow HB, Su EW, Onyia JE, Su C (2008) "Evolutionary computation for discovery of composite transcription factor binding sites," Nucleic Acids Research, Vol. 36, e142.
Fogel GB (2008) "Computational Intelligence Approaches for Pattern Discovery in Biological Systems," Briefings in Bioinformatics, Vol. 9, pp. 307-16.
Fogel DB, Hays TJ, Hahn SL, and Quon J (2004) "A Self-Learning Evolutionary Chess Program," Proceedings of the IEEE, Vol. 92, pp. 1947-1954.
Fogel GB, Weekes DG, Varga G, Dow ER, Harlow HB, Onyia JE, and Su C (2004) "Discovery of Sequence Motifs Related to Coexpression of Genes Using Evolutionary Computation," Nucleic Acids Research, Vol. 32, pp. 3826-3835.
Fogel DB (2003) "Evolutionary Entertainment with Intelligent Agents," IEEE Computer, June, pp. 94-96.
Chellapilla K and Fogel DB (2001) "Evolving an Expert Checkers Playing Program without Using Human Expertise," IEEE Transactions on Evolutionary Computation, Vol. 5, pp.422-428.
Chellapilla K and Fogel DB (1999) "Evolution, Neural Networks, Games, and Intelligence," Proc. IEEE, Vol. 87, pp. 1471-1496.