Shane T. Jensen - Refereed Publications
  1. Jensen, S.T., Erkan, I., Arnardottir, E.S. and Small, D.S. (2009). "Bayesian Testing of Many Hypotheses X Many Genes: A Study of Sleep Apnea." Accepted for publication in Annals of Applied Statistics. Technical Report arXiv:stat.ME/0903.0201. arXiv link PDF file

  2. Jensen, S.T., Soi, S. and Wang, L. (2009). "A Bayesian Approach to Efficient Differential Allocation for Resampling-Based Significance Testing." BMC Bioinformatics 10:198. PDF file

  3. Jensen, S.T., Shirley, K., and Wyner, A.J. (2009). "Bayesball: A Bayesian Hierarchical Model for Evaluating Fielding in Major League Baseball." Annals of Applied Statistics 3:491-520. PDF file

  4. Megraw, M., Pereira, F., Jensen, S.T., Ohler, U. and Hatzigeorgiou, A. (2009). "A Transcription Factor Affinity Based Code for Mammalian Transcription Initiation." Genome Research 19:644-656. PDF file

  5. Braunstein, A., Wei, Z., Jensen, S.T., and McAuliffe, J. (2008). "A spatially varying two-sample recombinant coalescent, with applications to HIV escape response." Advances in Neural Information Processing Systems 21 (NIPS 2008). NIPS Link

  6. Tuteja, G., Jensen, S.T., White, P. and Kaestner, K.H. (2008). "Cis-regulatory modules in the mammalian liver: composition depends on strength of Foxa2 consensus site." Nucleic Acids Research 36:4149-4157. NAR Link PDF file

  7. Bradlow, E.T., Jensen, S.T., Wolfers, J., and Wyner, A.J. (2008). "A Statistical Look at Roger Clemens' Pitching Career." Chance 21:24-30. PDF file

  8. Kandylas, V., Ungar, L.H., Sandler, T. and Jensen, S.T. (2008). "Multiway clustering for creating biomedical term sets." IEEE International Conference on Bioinformatics and Biomedicine (BIBM 08), pp. 449-452. BIBM Link PDF file

  9. Yan, B., Chen, G., Sigal, K., Yang, X., Jensen, S.T., Van Waes, C., Stoeckert, C.J. and Chen, Z. (2008). "Systems biology-defined NF-kB regulons, interacting signal pathways and networks are implicated in the malignant phenotype of head and neck cancer cell lines differing in p53 status." Genome Biology 9:R53 GB Link PDF file

  10. Jensen, S. T. and Liu, J.S. (2008). "Bayesian Clustering of Transcription Factor Binding Motifs." Journal of the American Statistical Association 103:188-200. PDF file

  11. Che, D., Li, G., Jensen, S.T., Liu, J.S. and Xu, Ying. (2008). "PFP: A Computational Framework for Phylogenetic Footprinting in Prokaryotic Genomes." In Bioinformatics Research and Applications, Lecture Notes in Computer Science, Volume 4983, pp. 110-121. Springer Link PDF file

  12. Jensen, S.T., Chen, G., and Stoeckert, C. (2007). "Bayesian Variable Selection and Data Integration for Biological Regulatory Networks." Annals of Applied Statistics 1: 612-633. Euclid Link arXiv link PDF file

  13. Mackiewicz, M., Shockley, K.R., Romer, M.A., Galante, R.J., Zimmerman, J.E., Naidoo, N., Baldwin, D.A., Jensen, S.T., Churchill, G.A. and Pack, A.I. (2007). "Macromolecule biosynthesis: a key function of sleep." Physiological Genomics 31: 441--457. PubMed Link PDF file

  14. Carruth, M. and Jensen, S.T. (2007). "Evaluating Throwing Ability in Baseball." Journal of Quantitative Analysis in Sports 3:4. arXiv link PDF file

  15. Chen, G., Jensen, S.T. and Stoeckert, C. (2007). "Clustering of Genes into Regulons using Integrated Modeling." Genome Biology 8:R4. PubMed Link PDF file

  16. Megraw, M., Baev, V., Rusinov, V., Jensen, S.T., Kalantidis, K., and Hatzigeorgiou, A.G. (2006). "MicroRNA Promoter Element Discovery in Arabidopsis". RNA 12: 1612 - 1619. PubMed Link PDF file

  17. Wei, Z. and Jensen, S.T. (2006). "GAME: detecting cis-regulatory elements using a genetic algorithm." Bioinformatics 22: 1577 - 1584. PubMed Link PDF file

  18. Wang, L., Jensen, S.T. and Hannenhalli, S. (2006). "An Interaction-dependent model for transcription factor binding." In Systems Biology and Regulatory Genomics, Lecture Notes in Computer Science, Volume 4023, pp. 225-234. Springer Link PDF file

  19. Jensen, S.T., Shen, L. and Liu, J.S. (2005). "Combining phylogenetic motif discovery and motif clustering to predict co-regulated genes." Bioinformatics 21:3832--3839. PubMed Link PDF file

  20. Che, D., Jensen, S.T., Cai, L. and Liu, J.S. (2005). "BEST: Binding-site estimation suite of tools." Bioinformatics 21: 2909 - 2910. PubMed Link PDF file

  21. Glickman, M.E. and Jensen, S.T. (2005). "Adaptive paired comparison design." Journal of Statistical Planning and Inference 127: 279--293. PDF file

  22. Eichenberger, P., Fujita, M., Jensen, S.T., Conlon, E.M., Rudner, D.Z., Wang, S., Ferguson, C., Sato, T., Liu, J.S., and Losick R. (2004). "The entire program of gene expression for a single differentiating cell type." PLoS Biology 2:e328 PubMed Link PDF file

  23. Jensen, S.T. and Liu, J.S. (2004). "BioOptimizer: a Bayesian scoring function approach to motif discovery." Bioinformatics 20:1557--1564. PubMed Link PDF file

  24. Jensen, S.T., Liu, X.S., Zhou, Q. and Liu, J.S. (2004). "Computational discovery of gene regulatory binding motifs: a Bayesian perspective." Statistical Science 19:188--204. PDF file

  25. Molle, V., Fujita, M., Jensen, S.T., Eichenberger, P., Gonzalez-Pastor, E., Liu, J.S. and Losick, R. (2003). "The spo0A regulon of Bacillus subtilis." Molecular Microbiology 50:1683--1701. PubMed Link PDF file

  26. Eichenberger, P., Jensen, S.T., Conlon, E.M., van Ooij, C., Silvaggi, J., Fujita, M., Ben-Yehuda, S., Stragier, P., Liu, J.S., and Losick, R. (2003). "The SigmaE regulon and the identification of additional sporulation genes in Bacillus subtilis." Journal of Molecular Biology 327:945--972. PubMed Link PDF file

  27. Lenzenweger, M., Jensen, S.T. and Rubin, D.B. (2003). "Finding the `genuine' schizotype: a model and method for resolving heterogeneity in performance on laboratory measures in experimental psychopathology research." Journal of Abnormal Psychology 112:457--468. PubMed Link PDF file

  28. Jensen, S.T., Lenzenweger, M. and Rubin, D.B. (2002). "A Bayesian approach to reducing heterogeneity in laboratory measures: An illustration from schizophrenia research." Case Studies in Bayesian Statistics 6:255--266. PDF file

  29. Stirling, G., Fairbairn, D.J., Jensen, S. and Roff, D.A. (2001). "Does a negative genetic correlation between wing morph and early fecundity imply a functional constraint in Gryllus firmus?" Evolutionary Ecology Research 3:157-177. PDF file

  30. Shane T. Jensen and George P.H. Styan. (1999). Some comments and a bibliography on the Laguerre-Samuelson inequalities with extensions and applications to statistics and matrix theory. In Analytical and Geometric Inequalities and Applications. Kluwer Academic, pp. 151--182 PDF file

Shane T. Jensen - Popular Media Articles
  1. Bradlow, E., Jensen, S.T., Wolfers, J. and Wyner, A. (2008). "Report Backing Clemens Chooses Its Facts Carefully." New York Times. February 10, 2008. NY Times Link PDF file

Shane T. Jensen - Technical Reports
  1. Jensen, S.T. and Shore, S.H. "Changes in the Distribution of Income Volatility." Technical Report. arXiv:stat.AP/0808.1090. arXiv link PDF file

  2. Jensen, S.T., McShane, B. and Wyner, A.J. "Hiearchical Bayesian Modeling of Hitting Performance in Baseball." Technical Report arXiv:stat.AP/0902.1360. arXiv link PDF file