Publications

  1. McShane, B.B., Galante, R.J., Biber, M., Jensen, S.T., Wyner, A.J. and Pack, A.I. "Assessing REM Sleep in Mice Using Video Data." Accepted for publication in Sleep.

  2. Jensen, S.T. and Shore, S. "Semi-parametric Bayesian Modeling of Income Volatility Heterogeneity." Accepted for publication in the Journal of the American Statistical Association 106:1280-1290. Link

  3. McShane, B.B., Braunstein, A., Piette, J. and Jensen, S.T. (2011). "A Bayesian variable selection approach to major league baseball hitting metrics." Journal of Quantitative Analysis in Sports 7: Issue 4, Article 2. Link

  4. Mukherjee, R., Jensen, S.T., Male, F., Bittinger, K., Hodinka, R., Miller, M.D., and Bushman, F. (2011). "Switching between raltegravir resistance pathways analyzed by deep sequencing." AIDS 25:1951-1959. Link

  5. Everett, L.J., Jensen, S.T., and Hannenhalli, S. (2011). "Transcriptional regulation via TF-modifying enzymes - an integrative model-based analysis." Nucleic Acids Research 39:e78. Link

  6. San Antonio, J.D., Schweitzer, M.H., Jensen, S.T., Kalluri, R., Buckley, M., and Orgel, J.P. (2011). "Dinosaur peptides suggest mechanisms of protein survival." PLoS ONE 6:e20381. Link

  7. Winter, C.M., Austin, R.S., Blanvillain-Baufume, S., Reback, M.A., Monniaux, M., Wu, M., Sang, Y., Yamaguchi, A., Yamaguchi, N., Parker, J.E., Parcy, F., Jensen, S.T., Li, H., and Wagner, D. (2011). "LEAFY target genes reveal floral regulatory logic, cis motifs, and a link to biotic stimulus response." Developmental Cell 20:430-443. Link

  8. George, E.I. and Jensen, S.T. (2011). "Commentary: A Latent Variable Perspective of Copula Modeling." Marketing Science 30:22-24. Link

  9. Parkin, J.D., San Antonio, J.D., Pedchenko, V., Hudson, B., Jensen, S.T., and Savige, J. (2011). "Mapping structural landmarks, ligand binding sites and missense mutations to the collagen IV heterotrimers predicts major functional domains, novel interactions and variation in phenotypes in inherited diseases affecting basement membranes." Human Mutation 32:127-143. PDF file

  10. Heller, R., Jensen, S.T., Rosenbaum, P.R. and Small, D.S. (2010). "Sensitivity analysis for the cross-match test, with applications in genomics." Journal of the American Statistical Association 105:1005-1013. PDF file

  11. McShane, B.B., Galante, R.J., Jensen, S.T., Naidoo, N., Pack, A.I. and Wyner, A.J. (2010). "Characterization of the bout durations of sleep and wakefulness." Journal of Neuroscience Methods 193:321-333.

  12. Piette, J., Braunstein, A., McShane, B.B. and Jensen, S.T. (2010). "A Point-Mass Mixture Random Effects Model for Pitching Metrics." Journal of Quantitative Analysis in Sports 6: Issue 3, Article 8. PDF file

  13. Wallach, H.M., Jensen, S.T., Dicker, L. and Heller, K. (2010). "An alternative prior process for nonparametric Bayesian clustering." Proceedings of the Thirteenth International Conference on Artificial Intelligence and Statistics (AISTATS) 2010, JMLR W & CP 9, pp. 892-899. PDF file

  14. Megraw, M., Sethupathy, P., Gumireddy, K., Jensen, S.T., Huang, Q. and Hatzigeorgiou, A.G. (2010). "Isoform specific gene auto-regulation via miRNAs: a case study on miR-128b and ARPP-21." Theoretical Chemistry Accounts: Theory, Computation, and Modeling (Theoretica Chimica Acta) 125:593-598. PDF file

  15. Jensen, S.T., McShane, B. and Wyner, A.J. (2009). "Hierarchical Bayesian modeling of hitting performance in baseball." Bayesian Analysis 4:631-652. Discussion and rejoinder, pp. 653-674. PDF file

  16. 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." Annals of Applied Statistics 3:1080-1101. PDF file

  17. 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

  18. 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

  19. 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

  20. 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), pp. 193-200 PDF file

  21. 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. PDF file

  22. 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. PDF file

  23. 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

  24. 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 PDF file

  25. 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

  26. 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. PDF file

  27. 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. PDF file

  28. 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. PDF file

  29. Carruth, M. and Jensen, S.T. (2007). "Evaluating throwing ability in baseball." Journal of Quantitative Analysis in Sports 3: Issue 3, Article 2. PDF file

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

  31. 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. PDF file

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

  33. 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. PDF file

  34. 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. PDF file

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

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

  37. 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 PDF file

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

  39. 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

  40. 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. PDF file

  41. 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. PDF file

  42. 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. PDF file

  43. 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

  44. 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

  45. 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

    Popular Media Articles

  1. Jensen, S.T. (2011). "Evaluating general managers in baseball." Chance Magazine 24 (4): 47-49.

  2. Bradlow, E., Jensen, S.T., Wolfers, J. and Wyner, A. (2008). "Report backing Clemens chooses its facts carefully." New York Times. February 10, 2008. PDF file