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Publications

Table of Contents

The * symbol denotes equal contributions.

Working papers and preprints #

  1. Mykhaylo M. Malakhov and Wei Pan. “Age-dependent regulation of protein expression and its impact on Alzheimer’s disease.” In preparation.
  2. Mykhaylo M. Malakhov and Shandelle M. Henson. “Backward bifurcations in a low-dimensional model of seabird population dynamics.” In preparation.
  3. Lap Sum Chan, Mykhaylo M. Malakhov, and Wei Pan. “A multi-response Mendelian randomization framework for identifying shared and distinct causes of related traits.” In preparation.

Peer-reviewed journal articles #

  1. Mykhaylo M. Malakhov and Wei Pan. “Co-expression-wide association studies link genetically regulated interactions with complex traits.” Nature Communications, 16: 11061, Dec. 2025.
    [full text] | [medRxiv] | [GitHub] | doi: 10.1038/s41467-025-66039-6
  2. Ruoyu He*, Jingchen Ren*, Mykhaylo M. Malakhov, and Wei Pan. “Enhancing nonlinear transcriptome- and proteome-wide association studies via trait imputation with applications to Alzheimer’s disease.” PLOS Genetics, 21(4): e1011659, Apr. 2025.
    [full text] | [GitHub] | doi: 10.1371/journal.pgen.1011659
  3. Lap Sum Chan, Mykhaylo M. Malakhov, and Wei Pan. “A novel multivariable Mendelian randomization framework to disentangle highly correlated exposures with application to metabolomics.” The American Journal of Human Genetics, 111(9): 1834-1847, Sept. 2024.
    [full text] | [GitHub] | doi: 10.1016/j.ajhg.2024.07.007
  4. Mykhaylo M. Malakhov, Ben Dai, Xiaotong T. Shen, and Wei Pan. “A bootstrap model comparison test for identifying genes with context-specific patterns of genetic regulation.” The Annals of Applied Statistics, 18(3): 1840-1857, Sept. 2024.
    [full text] | [bioRxiv] | [GitHub] | doi: 10.1214/23-AOAS1859
  5. Zhaotong Lin, Haoran Xue, Mykhaylo M. Malakhov, Katherine A. Knutson, and Wei Pan. “Accounting for nonlinear effects of gene expression identifies additional associated genes in transcriptome-wide association studies.” Human Molecular Genetics, 31(14): 2462-2470, July 2022.
    [full text] | [GitHub] | doi: 10.1093/hmg/ddac015
  6. Julie C. Blackwood, Mykhaylo M. Malakhov, Junyan Duan*, Jordan J. Pellett*, Ishan S. Phadke*, Suzanne Lenhart, Charles Sims, and Katriona Shea. “Governance structure affects transboundary disease management under alternative objectives.” BMC Public Health, 21: 1782, Oct. 2021.
    [full text] | doi: 10.1186/s12889-021-11797-3
  7. Junyan Duan*, Mykhaylo M. Malakhov*, Jordan J. Pellett*, Ishan S. Phadke*, Jackson Barber, and Julie C. Blackwood. “Management efficacy in a metapopulation model of white-nose syndrome.” Natural Resource Modeling, 34(3): e12304, Aug. 2021.
    [full text] | [GitHub] | doi: 10.1111/nrm.12304

Theses and technical reports #

  1. Mykhaylo M. Malakhov. Accounting for Interactions and Uncertainty in Multi-Omic Association Studies. PhD Dissertation, University of Minnesota, July 2025.
    [full text] | [ProQuest]
  2. Mykhaylo M. Malakhov, Brianna R. Fitzpatrick, Rebecca A. Lopez, and Abhishek Shivkumar. Attractor Reconstruction and Empirical Parameter Inference for Hydrogen-Oxygen Chemistry. Technical Report AD1098889, Air Force Research Laboratory, Aug. 2019.
    [full text]
  3. Mykhaylo M. Malakhov. Managing White-nose Syndrome in Bats: A Spatially Dynamic Modelling Approach. Honors Thesis, Andrews University, Apr. 2019.
    [full text] | doi: 10.32597/honors/216