Papers and Publications

(links to preprints, arXiv, or journal website)

2019

Duron, C., Pan, Y., D. Gutmann, Hardin, J., Radunskaya, A. Variability of Betweenness Centrality and Its Effect on Identifying Essential Genes, Bulletin of Mathematical Biology. in press.
*Lu, B., Hardin, J. Prediction Intervals for Random Forests, submitted.
- Prediction intervals for random forests with applications to high throughput data (Computational Genomics Summer Institute @ IPAM, 2017)
*Allison, K., *Hallman, M., Radunskaya, A., Hardin, J., Hudgings, J. Theory and experiment to increase the speed of CCD-based thermoreflectance imaging, submitted.

2018

Horton, N., Hardin, J. Challenges and Opportunities for Statistics and Data Science Undergraduate Major and Minor Degree Programs. Proceedings of the Tenth International Conference on Teaching Statistics, 2018.
*Evans, C., Hardin, J., Stoebel, D. Selecting between-sample RNA-Seq normalization methods from the perspective of their assumptions. Briefings in Bioinformatics, 19(5): 776–792, 2018. (paper @ arxiv.org)
- Tutorial on RNASeq Normalization and Differential Expression (Computational Genomics Summer Institute @ IPAM, 2016)
- Assumptions in Normalizing RNASeq Data (Computational Genomics Summer Institute @ IPAM, 2016)
Hardin, J. Fun, Not Competition: The Story of My Math Club, Journal of Humanistic Mathematics, 8(1): 350-358, 2018.
Pan, Y., Duron, C., Bush, E., Sims, P., Hardin, J., Radunskaya, A., Gutmann, D. Graph Complexity Analysis Identifies an ETV5 Tumor-Specific Network in Human and Murine Low-Grade Glioma, PLoS ONE, 13(5): e0190001, 2018.
Hardin, J. Dynamic Data in the Statistics Classroom. Technological Innovations in Statistics Education, 11(1), 2018. (paper @ arxiv.org, full worked-out examples)
- Dynamic Data in the Classroom (eCOTS 2016)
- Dynamic Data in the Statistics Classroom (useR 2016)

2017

*Wong, G., Bonocora, R., *Schep, A., *Beeler, S., Lee, A., *Shull, L., *Batachari, L., *Dillon, M., *Evans, C., *Becker, C., Bush, E., Hardin, J., Wade, J., Stoebel, D. The genome-wide transcriptional response to varying RpoS levels in Escherichia coli K-12. Journal of Bacteriology, 199:e00755-16, 2017. (paper @ biorxiv.org)
Hardin, J., Kloke, J. “Statistical Analyses” in Current Protocols in Molecular Biology, Appendix 4A, John Wiley & Sons, 2017.
*Evans, C., Hardin, J., Huber, M., Stoebel, D., *Wong, G. Differential expression analysis for multiple conditions, unpublished, 2017. (paper @ arxiv.org)

2016

*Coleman, J., *Replogle, J., Chandler, G., Hardin, J. Resistant Multiple Sparse Canonical Correlation. Statistical Applications in Genetics and Molecular Biology;15 (2): 123-38, 2016. (paper @ arxiv.org)

2015

Hardin, J., Hoerl, R., Horton, N.J., Nolan, D. Data Science in Statistics Curricula: Preparing Students to ‘Think with Data’. The American Statistician, 69(4):343-353, 2015. (paper @ arxiv.org)
Hardin, J., Sarkis, G., *URC, P.C. Network Analysis with the Enron Email Corpus. Journal of Statistics Education, 23(2), 2015. (P.C. URC stands for the Pomona College Undergraduate Research Circle whose members for this project were Timothy Kaye, David Khatami, Daniel Metz, and Emily Proulx.) (paper @ arxiv.org)

2013

Hardin, J., Garcia, S.R., Golan, D. A method for generating realistic correlation matrices Annals of Applied Statistics, 7: 1733-1762, 2013. (paper @ arxiv.org)

2012

*Brieger, K, J. Hardin. Medicine and Statistics: the inextricable link Chance, 25: 31-34, 2012.
*Head, A., Hardin, J., Adolph, S. New methods for estimating maximum performance and the correlation of sample measures, Environmental and Ecological Statistics, 19: 127-137, 2012.

2011

Karnovsky, N.J., *Brown, Z.W., Welcker, J., Harding, A.M.A., Walkusz, W., Cavalcanti, A., Hardin, J., Kitaysky, A., Gabrielsen, G., Grémillet, D. Inter-colony comparison of diving behavior of an Arctic top predator: implications for warming in the Greenland Sea, Marine Ecology Progress Series, 440: 229-240, 2011. DOI: 10.3354/meps0935.
Grosfils, E.B., *Long, S.M., *Venechuk, E.M.,* Hurwitz, D.M., *Richards, J.W., *Kastl, Brian, *Drury, D.E., Hardin, J., 2011, Geologic map of the Ganiki Planitia quadrangle (V-14), Venus: U.S. Geological Survey Scientific Investigations Map 3121.

2010

*Richards, J., Hardin, J., Grosfils, E. Weighted Model-Based Clustering for Remote Sensing Image Analysis, Computational Geosciences, 14: 125-136, 2010.

2009

2008

*Yiu, G., *McCord, A., *Wise, A., *Jindal, R., *Hardee, J., *Kuo, A., *Yuen Shimogawa, M., Cahoon, L., Wu, M., Kloke, J., Hardin, J., Mays Hoopes, L.L.; Pathways Change in Expression During Replicative Aging in Saccharomyces cerevisiae, Journal of Gerontology, 63A: 21-34, 2008.

2007

Hardin, J., *Mitani, A., *Hicks, L., *VanKoten, B.; A Robust Measure of Correlation Between Two Genes on a Microarray, BMC Bioinformatics, 8:220, 2007. (R code: biwt.r)
Adolph, S., Hardin, J.; Estimating Phenotypic Correlations: Correcting for Bias Due to Intraindividual Variability, Functional Ecology, 21: 178-184, 2007.

2006

*Wise, A., Hardin, J., Hoopes, L.; Yeast Through the Ages: a statistical analysis of genetic changes in aging yeast, Chance, 19, 39-44, 2006.
Hardin, J., Hoopes, L., *Murphy, R.; Analyzing DNA Microarrays with Undergraduate Statisticians, Proceedings of the Seventh International Conference on Teaching Statistics, 2006.

2005

Altman, N., Banks, D., Hardwick, J., Roeder, K., Craigmile, P., Hardin, J., Gupta, M. The IMS New Researchers’ Survival Guide, Institute of Mathematical Statistics; 2005.
Hardin, J., Rocke, D.; The Distribution of Robust Distances, Journal of Computational and Graphical Statistics, 14: 1-19, 2005. (R code: to estimate the MCD – mcd.est.r and to estimate c and m – cm.r.)
Hardin, J.; Microarray Data from a Statistician’s Point of View, STATS, 42:4-13, 2005.

2004

Hardin, J., Waddell, M., Page, D., Zhan, F., Barlogie, B., Crowley, J., Shaughnessy, J.; Evaluation of Multiple Models to Distinguish Closely Related Forms of Disease Using DNA Microarray Data: an Application to Multiple Myeloma, Statistical Applications in Genetics and Molecular Biology, 3 (article 10), 2004.
Hardin, J., Rocke, D.; Outlier Detection in the Multiple Cluster Setting Using the Minimum Covariance Determinant Estimator, Computational Statistics and Data Analysis, 44: 625-638, 2004.
Pauler, D., Hardin, J., Faulkner, J., Leblanc, M., Crowley, J.; Survival Analysis with Gene Expression Arrays. In Handbook of Statistics 23: Advances in Survival Analysis, eds. N.Balakrishnan and C.R. Rao, Elsevier Science: Amsterdam; 2004.

2002

Durbin, B., Hardin, J., Hawkins, D., Rocke, D.; A Variance-Stabilizing Transformation for Gene-Expression Microarray Data; Bioinformatics, 18: S105-S110, 2002.
Zhan, F., Hardin, J., Kordsmeier, B., Bumm, K., Zheng, M., Tian, E., Sanderson, R., Yang, Y., Wilson, C., Zangari, M., Anaissie, E., Morris, C., Muwalla, F., van Rhee, F., Fassas, A., Crowley, J., Tricot, G., Barlogie, B., Shaughnessy, J.; Global Gene Expression Profiling of Multiple Myeloma, Monoclonal Gammopathy of Undetermined Significance, and Normal Bone Marrow Plasma Cells; Blood, 99: 1745-1757, 2002.

1999-2000