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Visiting Associate Professor of Mathematics, Biology
Ph.D. in Statistics, University of Minnesota, Minneapolis MN, 1996; Laurea (cum laude) in Statistic and Economic Sciences, University La Sapienza, Rome ITALY, 1990.
Email:
Research Interests: Multivariate and computational statistics. Analysis and modeling of genomic data. Comparative genomics. Bioinformatic methods for the investigation of regulatory sequences genome-wide.
Selected Works:
Chiaromonte F., Yang S., Elnitski L., Bing Yap V., Miller W., Hardison R.C. (2001) Association between divergence and interspersed repeats in mammalian noncoding genomic DNA. Proceedings Nat'l Acad. of Sciences USA 98(25): 14503-14508.
Chiaromonte F., Bing Yap V., Miller W. (2002) Scoring pairwise genomic sequence alignments. Proceedings Pacific Symposium on Biocomputing 2002.
Chiaromonte F., Martinelli J.A. (2002) Dimension reduction strategies for analyzing global gene expression data with a response. Math'l Biosciences 176 (1): 123-144.
Chiaromonte F., Cook R.D., Li B. (2002) Sufficient dimension reduction in regressions with categorical predictors. Annals of Statistics 30(2): 475-497
Chiaromonte F., Cook R.D. (2002) Sufficient dimension reduction and graphics in regression. Annals of the Institute of Statistical Mathematics 54(4): 768-795.
Waterston, R. et al., Mouse genome sequencing consortium (2002) Initial sequencing and comparative analysis of the mouse genome. Nature 420: 520-562.
Elnitski L., Hardison R.C., Li J., Yang S., Kolbe D., Eswara P., O Connor M.J., Schwartz S., Miller W., Chiaromonte F. (2003) Distinguishing regulatory DNA from neutral sites. Genome Research 13: 64-72.
Hardison R.C., Roskin K.M., Yang S., Diekhans M., Kent J.W., Weber R., Elnitski L., Li J., O Connor M., Kolbe D., Schwartz S., Furey T.S., Whelan S., Goldman N., Smit A., Miller W., Chiaromonte F., Haussler D. (2003) Co-variation in frequencies of substitution, deletion, transposition and recombination during eutherian evolution. Genome Research 13: 13-26.
Chiaromonte F., Miller W. and Bouhassira E. (2003) Gene length and proximity to neighbors affect genome-wide expression levels. Genome Research 13: 2602-2608.
Li B., Cook R.D., Chiaromonte F. (2003) Dimension reduction for the conditional mean in regressions with categorical predictors. Annals of Statistics 30: 1636-1668.
Hardison R.C., Chiaromonte F., Kolbe D., Wang H., Petrykowska H., Elnitski L., Yang S., Giardine B., Zhang Y., Riemer C., Schwartz S., Haussler D., Roskin K., Weber R., Diekhans M., Kent W.J., Weiss M.J., Welch J. and Miller W. (2004) Global prediction and tests for erythroid regulatory regions. Cold Spring Harbor Symposia in Quantitative Biology: The Genome of Homo Sapiens 68: 335-345.
Chiaromonte F., Weber R. J., Roskin K.M., Diekhans M., Kent W.J. and Haussler D. (2004) The share of human genomic DNA under selection estimated from human-mouse genomic alignments. Cold Spring Harbor Symposia in Quantitative Biology: The Genome of Homo Sapiens 68: 245-254.
Gibbs, R. et al., Rat Genome Sequencing Project Consortium (2004) Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature 428: 493-521.
Makova K.D., Yang S. and Chiaromonte F. (2004) Insertions and deletions are male-biased too: a whole-genome analysis in rodents. Genome Research 14: 567-573.
Kolbe D., Taylor J., Elnitski L., Eswara P., Li J., Miller W., Hardison R.C. and Chiaromonte F. (2004) Regulatory potential scores from genome-wide 3-way alignments of human, mouse and rat. Genome Research 14: 700-707.
Yang S., Smit A.F., Schwartz S., Chiaromonte F., Roskin K. M., Haussler D., Miller W. and Hardison R.C. (2004) Patterns of insertions and their covariation with substitutions in the rat, mouse and human genomes. Genome Research 14: 517-527.
Arnott J., Evans J. and Chiaromonte F. (2004) Characterization of extratropical transition using cluster analysis. Monthly Weather Review (to appear).
Li B., Zha H. and Chiaromonte F. (2004) Contour regression: a general approach to dimension reduction. Annals of Statistics, accepted pending minor revisions.
Hillier, L., et al., International Chicken Sequencing Consortium (2004) Sequencing and comparative analysis of the chicken genome. In revision for Nature.
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