This is a list of papers referring to various Recursive Partitioning methods, which may further help you to understand the underlying data analysis methods used in ChemTree Drug Discovery Software. FIRM is a particular Recursive Partitioning flavor which stands for ‘Formal Inference-based Recursive Modeling’. Over the years Golden Helix has made various novel improvements to FIRM. Papers that explicitly mention ChemTree are bolded.

• S. Stanley Young, Vijay K. Gombar, Michael R. Emptage, Neal F. Cariello, Christophe Lambert, (2002), 'Mixture deconvolution and analysis of Ames mutagenicity data', Chemometrics and Intelligent Laboratory Systems 60, 5-11.
• Abt, M.,  Lim, Y., Sacks, J., , Xie, M., and Young, S. S., (2001), `A Sequential Approach for Identifying Lead Compounds in Large Chemical Databases', Statistical Science, 16, 154-168.
• Biggs, D., B. deVille, and E. Suen (1991). `A method of choosing multiway partitions for classification and decision trees', Journal of Applied Statistics 18, 49.
• Ekins, S. (2003) Concurrent Pharmaceuticals. ‘In silico approaches to predicting drug metabolism, toxicology and beyond’, Biochemical Society Transactions Vol. 31, Part 3, 611-614.
• Ekins, S.; Berbaum, J. and Harrison, R.K. (2003) 'Generation and validation of rapid computational filters for CYP3D6 and CYP3A4', Drug Metabolism and Disposition, Vol. 31, No. 9, 1077-1080.
• Hawkins, D. M. and McKenzie, D. P., (1995).  `A data-based comparison of some recursive partitioning procedures', Proceedings, Statistical Computing Section, American Statistical Association, 245-252.
• Hawkins, D. M. and Musser, B. J., (1999) `One tree or a forest? Alternative dendrographic models', Computing Science and Statistics, 30, 534-542
• Hawkins, D. M., (2002). `Fitting multiple change-points to data', Computational Statistics and Data Analysis, 37, 323--341.
• Hawkins. D. M., and Musser, B. J. (2001), 'Feature selection with nondeterministic recursive partitioning',  Proceedings of the American Statistical Association [CD-ROM] Alexandria, VA: ASA.
• Hawkins, D. M. (1995). FIRM: Formal Inference-based Recursive Modeling, release 2. Technical Report 546, University of Minnesota, School of Statistics.
• Hawkins, D. M. and G. V. Kass (1982). `Automatic interaction detection'. In D. M. Hawkins (Ed.), Topics in Applied Multivariate Analysis. Cambridge University Press.
• Hill, D. A., L. M. Delaney, and S. Roncal (1997). `A Chi-Squared Automatic Interaction Detection (CHAID) analysis of factors determining critical outcomes', The Journal of Trauma: Injury, Infection and Critical Care 42, 62-66.
• Huang, H. C., T. K. Lin, and P. W. Ngui (1993). `Analysing a mental health survey by Chi-Squared Automatic Interaction Detection', Annals of the Academy of Medicine 22, 332-337.
• Hooton, T. M., Haley, R.W., Culver, D. H., White, J. W., Morgan, W. M., and Carroll, R. J., (1981), `The joint associations of multiple risk factors with the occurrence of nosocomial infections', American Journal of Medicine, 70, 960-970.
• Kass, G. V., (1980), `An exploratory technique for investigating large quantities of categorical data', Applied Statistics, 29, 119-127.
• Kass, G. V. (1975). Significance testing in, and some extensions of Automatic Interaction Detection. Ph. D. thesis, University of the Witwatersrand, Johannesburg.
• Young, S. S.; Ekins, S. and Lambert, C.G. (2002) ‘So many targets, so many compounds, but so few resources’, Current Drug Discovery, December, pp. 17-22.
• Musser, B. J. (1999) "Extensions to Recursive Partitioning" Ph.D. Thesis, University of Minnesota School of Statistics.
• Lambert, C.G. (2003) ‘Compound-Selection & Pharmacogenetics Tools’, Genetic Engineering News, v. 23 no. 1, pp. 30-32