Education

PhD Statistics, University of Tehran, 2014

MSc Mathematical Statistics, Allameh Tabataba’i University, 2010

BSc Statistics, University of Tehran, 2007

Selected Publications

Karimnezhad, A. and Perkins, T. J. (2023). Empirical Bayes Single Nucleotide Variant Calling For Next-Generation Sequencing Data. Working Paper.

Karimnezhad, A. (2022). More accurate estimation of cell-type composition in bulk expression through robust integration of single-cell information. Bioinformatics Advances, Volume 2, Issue 1, 2022, vbac049, https://doi.org/10.1093/bioadv/vbac049.

Karimnezhad, A. (2022). A Simple Yet Efficient Method of Local False Discovery Rate Estimation Designed for Genome-Wide Association Data Analysis. Accepted to appear in Statistical Methods and Applications.  https://doi.org/10.1007/s10260-021-00560-y

Karimnezhad, A., Palidwor, A. P., Thavorn, K., Campbell, P., Lo, B., Stewart, D. J. and Perkins, T. J. (2020). Accuracy and Reproducibility of Somatic Point Mutation Calling in Clinical-type Targeted Sequencing Data.  Accepted to appear in BMC Medical Genomics.

 Karimnezhad, A. and Bickel, D. R. (2020). Incorporating Prior Knowledge about Genetic Variants into the Analysis of Genetic Association Data: An Empirical Bayes Approach. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 17(2), 635-646.

Karimnezhad, A. and Zarepour, M. (2019). A General Guide in Bayesian and Robust Bayesian Estimation Using Dirichlet Processes. Accepted to Appear in Metrika.

Karimnezhad, A.  and Parsian, A. (2019). Bayes and Robust Bayes Inference in a General Setting. Communications in Statistics – Theory and Methods, 48(15), 3899-3920.

Karimnezhad, A. and Moradi, F. (2018). Allelic Frequency Estimation in Presence of Uncertain Priors. Journal of Theoretical Biology, 459, 119-129.

Karimnezhad, A. and Parsian, A.  (2018). Most Stable Sample Size Determination in Clinical Trials. Statistical Methods and Application, 27(3), 437-454.

Trafimow, D.,  Amrhein, V. and  52 others including Karimnezhad, A. (2018).  Manipulating the alpha level cannot cure significance testing. Frontiers in Psychology 9-690. doi: 10.3389/fpsyg.2018.00699.

 Karimnezhad, A., Lucas, P. J. and Parsian, A. (2017). Constrained Parameter Estimation with Uncertain Priors for Bayesian Networks. Electronic Journal of Statistics, 11(2), 4000-4032.

Mei, S., Karimnezhad, A., Forest, M., Bickel, D. R., Greenwood, C. (2017). The Performance of a New Local False Discovery Rate Method on Tests of Association between Coronary Artery Disease (CAD) and Genome-wide Genetic Variants. PLoS ONE, 12(9): e0185174. 

Karimnezhad, A. and Moradi, F. (2017). Road Accident Data Analysis Using Bayesian Networks.  Transportation Letters: The International Journal of Transportation Research, 9(1), 12-19.

Karimnezhad, A. and Moradi, F. (2016). Bayesian Parameter Learning with an Application, Metron, 74(1), 61-74.

Softwares

Karimnezhad, A. (2022). CSCDRNA: Covraiance Based Decomposition of Bulk Expression with Single-Cell Sequencing. R package, version 1.0.2. https://cran.r-project.org/web/packages/CSCDRNA

Karimnezhad, A. (2020). LFDR.MME: Estimating Local False Discovery Rates Using the Method of Moments. R package, version 1.0. https://cran.r-project.org/web/packages/LFDR.MME/

Karimnezhad, A., Kim, J., Akpawu, A., Chitpin, J. and Bickel, D. R. (2017). LFDR.Empirical-Bayes: Estimating Local False Discovery Rates Using Empirical Bayes Methods. R package, version 1.0. https://cran.r-project.org/web/packages/LFDREmpiricalBayes

Karimnezhad, A., Kim, J. and Bickel, D. R. (2017). LFDR.EmpiricalBayes. Shiny App. https://empiricalbayes.shinyapps.io/lfdrempiricalbayesapp/