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PUBLICATIONS |
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Arguably the simplest way to view my publication history is through my Google Scholar page. |
Alternatively, you can find below a somewhat more structured presentation (albeit usually out of date by 6-12 months). Here my publications have been collected into a list below, separated according to books, recent manuscripts, journal articles, proceedings papers, book chapters, discussion papers, and unpublished reports. An electronic version of my PhD thesis is available as well. |
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- Kolaczyk, E.D. and Csardi, G. (2020). Statistical
Analysis of Network Data with R, 2nd Edition. New York, Springer.
- Kolaczyk, E.D. (2017). Topics at the Frontier of Statistics and Network Analysis: (Re)Visiting the Foundations. Cambridge University Press.
- Kolaczyk, E.D. and Csardi, G. (2014). Statistical
Analysis of Network Data with R. New York, Springer.
- Kolaczyk, E.D. (2009). Statistical Analysis of Network Data: Methods and Models. New York, Springer.
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- Chen, L., Josephs, N., Lin, L., Zhou, J., and Kolaczyk, E.D. (2020). A spectral-based framework for hypothesis testing in populations of networks.
- Josephs, N., Lin, L., Rosenberg, S., and Kolaczyk, E.D. (2020). Bayesian classification, anomaly detection, and survival analysis using network inputs with application to the microbiome.
- Li, W., Sussman, D.S., and Kolaczyk, E.D. (2020). Estimation of the epidemic branching factor.
- Ahelegbey, D.F., Carvalho, L., and Kolaczyk, E.D. (2018). A Bayesian covariance and latent position model for multivariate financial time series.
- Kang, X., Ganguly, A., and Kolaczyk, E.D. (2017) Dynamic networks with multi-scale temporal structure.
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- Kolaczyk, E.D., Wright, H., and Yajima, M. (2020). Placing 'practice' at the center of data science eduction (with discussion). Harvard Data Science Review, (in press).
- Chang, J., Kolaczyk, E.D., and Yao, Q. (2020). Estimation of subgraph density in noisy networks. Journal of the American Statistical Association. (in press)
- Martinet, L. E., Kramer, M. A., Viles, W., Perkins, L. N., Spencer, E., Chu, C. J., ... & Kolaczyk, E. D. (2020). Robust dynamic community detection with applications to human brain functional networks. Nature Communications, 11(1), 1-13.
- Ikonomou, L., Herriges, M. J., Lewandowski, S. L., Marsland, R., Villacorta-Martin, C., Caballero, I. S., Frank, D.B., Sanghrajka, R.M., Dame, K., Kandula, M.M., Hicks-Berthet, J., Lawton, M.L., Christodoulou, C., Fabian, A.J., Kolaczyk, E., Varelas, X., Morrisey, E., Shannon, J.M., Mehta, P., and Kotton, D.N. (2020). The in vivo genetic program of murine primordial lung epithelial progenitors. Nature Communications, 11(1), 1-17.
- Posner, D.C., Lin, H., Meigs, J.B., Kolaczyk, E.D., and Dupuis, J. (2020). Convex combination sequence kernel association test for rare-variant studies. Genetic Epidemiology, 44(4), 352-367.
- Kolaczyk, E.D., Lin, L., Rosenberg, S., Xu, J., and Walters, J. (2020). Averages of unlabeled networks: Geometric characterization and asymptotic behavior. Annals of Statistics, 48(1), 514-538.
- Hahm, H.C., Zhou, L., Lee, C., Maru, M., Peterson, J., Kolaczyk, E.D. (2019). Feasibility, Preliminary Efficacy, and Safety of a Randomized Clinical Trial for Asian Women’s Action for Resilience and Empowerment (AWARE) Intervention. American Journal of Orthopsychiatry, 89(4), 462.
- Shappell, H., Tripodis, Y., Killiany, R.J., and Kolaczyk, E.D. (2019). A paradigm for longitudinal complex network analysis over patient cohorts in neuroscience. Network Science, 7(2), 196-214.
- Griffin, P.J., Zhang, Y., Johnson, W.E., and Kolaczyk, E.D. (2018). Detection of multiple perturbations in multi-omi
cs biological networks. Biometrics, 74(4), 1351 - 1361.
- Kramer, J., Helfrich, C., Levin, M., Hwang, I., Samuel, P., & Carralles, A., Schwartz, A., Goeva, A., & Kolaczyk, E.D. (2018). Initial evaluation of the effects of an environmental-focused problem-solving intervention for transition-age youth with developmental disabilities: Project TEAM. Developmental Medicine and Child Neurology, 60(8), 801-809.
- Gan, H.L. and Kolaczyk, E.D. (2018). Approximation of the difference of two Poisson-like counts by Skellam. Journal of Applied Probability, 55(2), 416 - 430.
- Hachigian, L.J., Carmona, V., Fenster, R.J., Kulicke, R., Heilbut, A., Sittler, A., Pereira de Almedia, L., Mesirov, J.P., Gao, F., Kolaczyk, E.D., and Heiman, M. (2017). Control of Huntington's disease-associated phenotypes by the striatum-enriched transcription factor Foxp2. Cell Reports, 21(10), 2688-2695.
- Balachandran, P., Kolaczyk,
E.D., and Viles, W. (2017). On the propagation of low-rate measurement error
to subgraph counts in large networks. Journal of Machine Learning Research, 18(61):1 - 33.
- Ginestet, C.E., Balachandran, P., Rosenberg, S., and Kolaczyk, E.D. (2017). Hypothesis testing for network data in functional neuroimaging. Annals of Applied Statistics, 11(2), 725-750.
- Chen, B.H., Hivert, M-F., Peters, M.J., Pilling, L.C., Hogan, J.D., Pham, L.M., Harries, L.W., Fox, C.S., Bandinelli, S., Dehghan, A., Hernandez, D.G., Hofman, A., Hong, J., Joehanes, R., Johnson, A.D., Munson, P.J., Rybin, D.V., Singleton, A.B., Uitterlinden, A.G., Ying, S., MAGIC Investigators, Melzer, D., Levy, D., van Meurs, J.B.J., Perrucci, L., Florez, J.C., Dupuis, J., Meigs, J.B., and Kolaczyk, E.D. (2016). Peripheral blood transcriptomic signatures of fasting glucose and insulin concentrations. Diabetes, 65(12), 3794-3804.
- Lu, C., O'Connor, G.T., Dupuis, J., and Kolaczyk, E.D. (2016). Meta-analysis for penalized regression methods with multi-cohort Genome-wide Association Studies. Human Heredity, 81, 142-149.
- Sloas, D.C., Zhuo, R., Xue, H., Chambers, A.R., Kolaczyk, E., Polley, D.B., and Sen, K. (2016). Interactions across multiple stimulus dimensions in primary auditory cortex. eNeuro, 3(4), ENEURO.0124-16.2016.
- Viles, W., Ginestet, C.E., Tang, A., Kramer, M.A., and Kolaczyk, E.D. (2016). Percolation under noise: Detecting explosive percolation using the second-largest component. Physical Review E, 93, 052301.
- Pham, L.M.,
Carvalho, L., Schaus, S., and Kolaczyk, E.D. (2016).
Perturbation detection through modeling of gene expression on
a latent biological pathway network: a Bayesian hierarchical
approach. Journal of the American Statistical Association,
111, 73-92.
- Li, Y., O'Connor, G.T., Dupuis, J., and Kolaczyk, E. (2015). Modeling gene-covariate interactions in sparse
regression with group structure for genome-wide association studies.
Statistical Applications in Genetics and Molecular Biology
14(3).
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Zhang, Y.,
Kolaczyk, E.D., and Spencer, B.D. (2015). Estimating network degree distribution
s under sampling: an inverse problem, with applications to monitoring social med
ia networks. Annals of Applied Statistics, 9(1), 166-199.
Krivitsky, P.N. and
Kolaczyk, E.D. (2014). On the question of effective sample size in network modeling: an asymptotic inquiry. Statistical Science, 30(2), 184-198.
- Heiman, M. et al. (2014). Molecular adaptations of striatal spiny projection neurons during levodopa-induced dyskinesia. Proceedings of the National Academy of Sciences, doi:10.1073.
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Christadore, L.M., Pham, L., Kolaczyk, E.D., and Schaus, S.E.
(2014). Improvement of experimental testing and network training conditions with genome-wide microarrays for more accurate predictions of drug gene targets. BMC Systems Biology, 8:7.
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Ding, Q. and Kolaczyk, E.D. (2013). A compressed PCA subspace method for anomaly detection in high-dimensional data. IEEE Transactions on Information Theory, 59(11), 7419-7433.
- Lu, C., Latourelle, J., O'Connor, G.T., Dupuis, J., and Kolaczyk, E.D. (2013). Network-guided sparse regression modeling for detection of gene-by-gene interactions. Bioinformatics, 29(10), 1241-1249.
- Katenka, N. and Kolaczyk, E.D. (2012). Multi-Attribute networks and the impact of partial information on inference and characterization. Annals of Applied Statistics, 6(3), 1068-1094.
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Hahm, H.C., Kolaczyk, E.D., Jang, J., Bhindarwala, A., and Swenson, T. (2012). Binge drinking trajectories from adolescence to young adulthood: the effects of peer social network. Substance Use and Misuse.
- McCormick, T.H., He, R., Kolaczyk, E.D., and Zheng, T. (2012). Surveying hard-to-reach groups through sampled respondents in a social network: a comparison of two survey strategies. Statistics in Biosciences – Special Issue on Networks, 4:1, 177-195.
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Jiang, X. and Kolaczyk, E.D. (2012). A latent eigen-probit model with link uncertainty for prediction of protein-protein interactions. Statistics in Biosciences – Special Issue on Networks, 4:1, 84-104 .
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Hahm, H.C., Kolaczyk, E., Lee, Y., Jang, J., and Ng, L. (2012). Are Asian-American women who were maltreated as children at higher likelihood for HIV risk behaviors, depression, or suicidality? Women’s Health Issues, 22(1), e35-e43.
- Pham, L., Christadore, L., Schaus, S., and Kolaczyk, E.D. (2011). Network-based prediction for sources of transcriptional dysregulation using latent pathway identification analysis. Proceedings of the National Academy of Sciences, 108(32), 13347 - 13352.
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Fast, E.M., Toomey, M.E., Panaram, K., Desjardins, D., Kolaczyk, E.D., and Frydman, H.M. (2011). Wolbachia enhance Drosophila stem cell proliferation and target the germline stem cell niche. Science, 334(6058), 990-992.
- Kramer, M.A., Eden, U.T., LePage, K.Q., Kolaczyk, E.D., Bianchi, M.T., and Cash, S.S. (2011). Emergence of persistent networks in long-term intracranial EEG recordings. Journal of Neuroscience, 31(44), 15757 – 15767.
- Jiang, X., Gold, D.L., and Kolaczyk, E.D. (2010). Network-based auto-probit modeling for protein function prediction. Biometrics, 67(3), 958-966 .
- Cosgrove, E.J., Gardener, T.S., Kolaczyk, E.D. (2010). On the choice and number of microarrays for transcriptional regulatory network inference. BMC Bioinformatics, 11:454.
- Di, J. and Kolaczyk, E.D. (2010). Complexity-penalized estimation of minimum volume sets for dependent data. Journal of Multivariate Analysis, 101(9), 1910-1926.
- Kramer, M.A., Eden, U.T., Kolaczyk, E.D., Zepeda, R., Eskandar, E.N., Cash, S.S. (2010). Coalescence and fragmentation of cortical networks during focal seizures. Journal of Neuroscience, 30(30), 10076-10085.
- Yang, S. and Kolaczyk, E.D. (2010). Target detection via network filtering. IEEE Transactions on Information Theory, 56(5), 2502-2515 .
- Scott, C. and Kolaczyk, E.D. (2010). Nonparametric assessment of contamination in multivariate data using minimum volume sets and FDR. Journal of Computational and Graphical Statistics, 19(2), 439-456.
- Kramer, M.A., Eden, U.T., Cash, S.S., and Kolaczyk, E.D. (2009). Network inference -- with confidence -- from multivariate time series. Physical Review E, 79, 061916.
- Kolaczyk, E.D., Chua, D.B., and Barthelemy, M. (2009). Group-betweenness and cobetweenness: Inter-related notions of coalition centrality. Social Networks,31:3, 190-203.
- Cosgrove, E.J., Zhou, Y., Gardner, T.S., and Kolaczyk, E.D. (2008). Predicting gene targets of perturbations via network-based filtering of mRNA expression compendia. Bioinformatics, 24(21), 2482-2490.
- Jiang, X., Nariai, N., Steffen, M., Kasif, S., and Kolaczyk, E.D. (2008). Integration of relational and hierarchical network information for protein function prediction. BMC Bioinformatics, 9:350.
- Kramer, M.A., Kolaczyk, E.D., and Kirsch, H.E. (2008). Emergent network topology at seizure onset in humans. Epilepsy Research,79, 173-186.
- Nariai, N., Kolaczyk, E.D., and Kasif, S. (2007). Probabilistic model for protein function prediction from multiple types of genome-wide data. PLoS ONE, 2:3, e337.
- Viger, F., Barrat, A., Dall'Asta, L., Zhang, C-H., and Kolaczyk, E.D. (2007). What is the real size of a sampled network? The case of the Internet. Physical Review E,75, 056111.
- Chua, D.B., Kolaczyk, E.D., and Crovella, M. (2006). Network Kriging. Journal of Selected Areas in Communications, Special Issue on Sampling the Internet, 24:12, 2263-2272.
- Louie, M.M. and Kolaczyk, E.D. (2006). A multiscale method for disease mapping in spatial epidemiology. Statistics in Medicine, 25:8, 1287-1308.
- Louie, M.M. and Kolaczyk, E.D. (2006). Multiscale detection of localized anomalous structure in aggregate disease incidence data. Statistics in Medicine, 25:5, 787-810.
- Kolaczyk, E.D., Ju, J., and Gopal, S. (2005). Multiscale, multigranular statistical image segmentation. Journal of the American Statistical Association, 100, 1358-1369.
- Ju, J., Gopal, S., and Kolaczyk, E.D. (2005). On the choice of spatial and categorical scale in remote sensing land cover characterization. Remote Sensing of Environment, 96(1):62-77..
- Kolaczyk, E.D. and Nowak, R.D. (2005). Multiscale generalized linear models for nonparametric function estimation. Biometrika, 92:1, 119-133.
- Kolaczyk, E.D. and Nowak, R.D. (2004). Multiscale likelihood analysis and complexity penalized estimation. Annals of Statistics,32, 500-527.
- Louie, M.M. and Kolaczyk, E.D. (2004). On the covariance properties of certain multiscale spatial processes. Statistics and Probability Letters,66:4, 407-416.
- Kolaczyk, E.D. (2003). On the use of prior and posterior information in the sub-pixel proportion problem. IEEE Transactions on Geoscience and Remote Sensing, 41(11), 2687-2691.
- Ju, J., Kolaczyk, E.D., and Gopal, S. (2003). Gaussian mixture discriminant analysis and sub-pixel land cover classification in remote sensing. Remote Sensing of Environment, 84(4),550-560.
- Morales, C.J. and Kolaczyk, E.D. (2002). Wavelets-based fractal analysis of human balance. Annals of Biomedical Engineering, 30, 588-597.
- Kolaczyk, E.D. and Huang, H. (2001). Multiscale statistical models for hierarchical spatial aggregation. Geographical Analysis, 33:2, 95-118.
- Nowak, R.D. and Kolaczyk, E.D. (2000). A Bayesian multiscale framework for Poisson inverse problems. IEEE Transactions on Information Theory, 46:5, 1811-1825.
- Kolaczyk, E.D. and Dixon, D.D. (2000). Nonparametric estimation of intensity maps using Haar wavelets and Poisson noise characteristics. The Astrophysical Journal, 534:1, 490-505.
- Kolaczyk, E.D. (1999). Bayesian Multi-Scale Models for Poisson Processes. Journal of the American Statistical Association, 94, 920-933.
- Dixon, D.D, Harmann, D.H., Kolaczyk, E.D., Samimi, J., Diehl, R., Kanbach, G., Mayer-Hasselwander, H., and Strong, A.W. (1998) Evidence for a gamma-ray halo. New Astronomy, 3:7, 539-561.
- Kolaczyk, E.D. (1998) Wavelet Shrinkage Estimation of Certain Poisson Intensity Signals Using Corrected Thresholds. Statistica Sinica, 9, 119-135.
- Chipman, H.A., Kolaczyk, E.D., and McCulloch, R.E. (1997) Adaptive Bayesian Wavelet Shrinkage. Journal of the American Statistical Association, 92, 1413-1421.
- Kolaczyk, E.D. (1997) Non-Parametric Estimation of Gamma-Ray Burst Intensities Using Haar Wavelets. The Astrophysical Journal, Vol. 483, 340-349.
- Kolaczyk, E.D. (1996) A Wavelet Shrinkage Approach to Tomographic Image Reconstruction. Journal of the American Statistical Association, 91, 1079-1090.
- Kolaczyk, E.D. (1994) Empirical Likelihood and Generalized Linear Models. Statistica Sinica, 4, 199-218.
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- Ginestet, C., Kramer, M., and Kolaczyk, E.D. (2016). Network analysis. In Handbook of Neuroimaging Data Analysis, Ombao, H., Lindquist, M., Thompson, W., and Aston, J. (ed.). CRC Press.
- Jiang, X. and Kolaczyk, E.D. (2010). Integration of network information for protein function prediction. In Systems Biology for Signaling Networks, Choi, S. (Ed.). Springer, New York.
- Kolaczyk, E.D. and Nowak, R.D. (2003). Multiscale statistical models. In Nonlinear Estimation and Classification, Denison et al. (eds.). Springer-Verlag: New York.
- Kolaczyk, E.D. (2003). Bayesian multiscale methods for Poisson count data. In Statistical Challenges in Modern Astronomy III, Babu and Feigelson (eds.). Springer-Verlag: New York.
- Kolaczyk, E.D. (1999). Some observations on the tractability of certain multiscale models. In Bayesian Inference in Wavelet-Based Models, Muller and Vidakovic (eds). Springer-Verlag: New York.
- Kolaczyk, E.D. (1996) An Application of Wavelet Shrinkage to Tomography. In Wavelets in Medicine and Biology. Aldroubi and Unser (eds):CRC Press.
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- Chang, J., Kolaczyk, E. D., & Yao, Q. (2020). Discussion of ‘Network cross-validation by edge sampling’. Biometrika, 107(2), 277-280.
- Goeva, A. and Kolaczyk, E.D. (2016). Comment on “A regularization scheme on word occurrence rates that improves estimation and interpretation of topical content.” Journal of the American Statistical Association, 111(516), 1382-1403
- Kolaczyk, E.D. (2003). Comment on "Wavelet-based nonparametric modeling of hierarchical functions in colon carcinogenesis." Journal of the American Statistical Association, 98, 585-587.
- Kolaczyk, E.D. (1995) Comment on "Wavelet Shrinkage: Asymptopia?" Journal of the Royal Statistical Society, Series B, 57, 356.
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