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Dmitry Prokopenko, Ph.D.

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Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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Displaying 25 of 59 total Publications Show all
  1. Willett JDS, Mullin K, Tanzi RE, Prokopenko D. Matching Heterogeneous Cohorts by Projected Principal Components Reveals Two Novel Alzheimer's Disease-Associated Genes in the Hispanic Population. medRxiv. 2025 Jan 19. PMID: 39867396; PMCID: PMC11759617.
    Citations:
  2. Castanho I, Yeganeh PN, Boix CA, Morgan SL, Mathys H, Prokopenko D, White B, Soto LM, Pegoraro G, Shah S, Ploumakis A, Kalavros N, Bennett DA, Lange C, Kim DY, Bertram L, Tsai LH, Kellis M, Tanzi RE, Hide W. Molecular hallmarks of excitatory and inhibitory neuronal resilience and resistance to Alzheimer's disease. bioRxiv. 2025 Jan 15. PMID: 39868232; PMCID: PMC11761133.
    Citations:
  3. Ngai T, Willett J, Waqas M, Fishbein LH, Choi Y, Hahn G, Mullin K, Lange C, Hecker J, Tanzi RE, Prokopenko D. Assessing polyomic risk to predict Alzheimer's disease using a machine learning model. Alzheimers Dement. 2024 Dec; 20(12):8700-8714. PMID: 39511865; PMCID: PMC11667526.
    Citations: 1
    Fields: NeuNeurologyPsyPsychiatryTranslation:Humans
  4. Willett JDS, Waqas M, Choi Y, Ngai T, Mullin K, Tanzi RE, Prokopenko D. Identification of 16 novel Alzheimer's disease susceptibility loci using multi-ancestry meta-analyses of clinical Alzheimer's disease and AD-by-proxy cases from four whole genome sequencing datasets. medRxiv. 2024 Sep 12. PMID: 39314934; PMCID: PMC11419201.
    Citations:
  5. Mathys H, Boix CA, Akay LA, Xia Z, Davila-Velderrain J, Ng AP, Jiang X, Abdelhady G, Galani K, Mantero J, Band N, James BT, Babu S, Galiana-Melendez F, Louderback K, Prokopenko D, Tanzi RE, Bennett DA, Tsai LH, Kellis M. Single-cell multiregion dissection of Alzheimer's disease. Nature. 2024 Aug; 632(8026):858-868. PMID: 39048816; PMCID: PMC11338834.
    Citations: 15
    Fields: SciScienceTranslation:HumansAnimalsCells
  6. Hahn G, Prokopenko D, Hecker J, Lutz SM, Mullin K, Tanzi RE, DeSantis S, Lange C. Polygenic hazard score models for the prediction of Alzheimer's free survival using the lasso for Cox's proportional hazards model. Genet Epidemiol. 2025 Jan; 49(1):e22581. PMID: 38982682.
    Citations: 1
    Fields: EpiEpidemiologyGenGenetics, MedicalTranslation:Humans
  7. Voorhies K, Young K, Hsu FC, Palmer ND, McDonald MN, Lee S, Hahn G, Hecker J, Prokopenko D, Wu AC, Regan EA, DeMeo D, Kinney GL, Crapo JD, Cho MH, Silverman EK, Lange C, Budoff MJ, Hokanson JE, Lutz SM. Association of PHACTR1 with Coronary Artery Calcium Differs by Sex and Cigarette Smoking. J Cardiovasc Dev Dis. 2024 Jun 27; 11(7). PMID: 39057616; PMCID: PMC11276683.
    Citations:
  8. Hahn G, Prokopenko D, Hecker J, Lutz SM, Mullin K, Sejour L, Hide W, Vlachos I, DeSantis S, Tanzi RE, Lange C. Prediction of disease-free survival for precision medicine using cooperative learning on multi-omic data. Brief Bioinform. 2024 May 23; 25(4). PMID: 38836403; PMCID: PMC11151121.
    Citations: 1
    Fields: ComComputational BiologyTranslation:Humans
  9. Shrine N, Guyatt AL, Erzurumluoglu AM, Jackson VE, Hobbs BD, Melbourne CA, Batini C, Fawcett KA, Song K, Sakornsakolpat P, Li X, Boxall R, Reeve NF, Obeidat M, Zhao JH, Wielscher M, Understanding Society Scientific Group, Weiss S, Kentistou KA, Cook JP, Sun BB, Zhou J, Hui J, Karrasch S, Imboden M, Harris SE, Marten J, Enroth S, Kerr SM, Surakka I, Vitart V, Lehtimäki T, Allen RJ, Bakke PS, Beaty TH, Bleecker ER, Bossé Y, Brandsma CA, Chen Z, Crapo JD, Danesh J, DeMeo DL, Dudbridge F, Ewert R, Gieger C, Gulsvik A, Hansell AL, Hao K, Hoffman JD, Hokanson JE, Homuth G, Joshi PK, Joubert P, Langenberg C, Li X, Li L, Lin K, Lind L, Locantore N, Luan J, Mahajan A, Maranville JC, Murray A, Nickle DC, Packer R, Parker MM, Paynton ML, Porteous DJ, Prokopenko D, Qiao D, Rawal R, Runz H, Sayers I, Sin DD, Smith BH, Artigas MS, Sparrow D, Tal-Singer R, Timmers PRHJ, Van den Berge M, Whittaker JC, Woodruff PG, Yerges-Armstrong LM, Troyanskaya OG, Raitakari OT, Kähönen M, Polašek O, Gyllensten U, Rudan I, Deary IJ, Probst-Hensch NM, Schulz H, James AL, Wilson JF, Stubbe B, Zeggini E, Jarvelin MR, Wareham N, Silverman EK, Hayward C, Morris AP, Butterworth AS, Scott RA, Walters RG, Meyers DA, Cho MH, Strachan DP, Hall IP, Tobin MD, Wain LV. Author Correction: New genetic signals for lung function highlight pathways and chronic obstructive pulmonary disease associations across multiple ancestries. Nat Genet. 2024 May; 56(5):1032-1033. PMID: 38641645.
    Citations:
    Fields: GenGenetics, Medical
  10. Voorhies K, Hecker J, Lee S, Hahn G, Prokopenko D, McDonald ML, Wu AC, Wu A, Hokanson JE, Cho MH, Lange C, Hoth KF, Lutz SM. Examining the Effect of Genes on Depression as Mediated by Smoking and Modified by Sex. Genes (Basel). 2024 04 27; 15(5). PMID: 38790194; PMCID: PMC11120779.
    Citations:
    Fields: GenGeneticsTranslation:Humans
  11. Lee S, Hecker J, Hahn G, Mullin K, Alzheimer's Disease Neuroimaging Initiative (ADNI), Lutz SM, Tanzi RE, Lange C, Prokopenko D. On the effect heterogeneity of established disease susceptibility loci for Alzheimer's disease across different genetic ancestries. Alzheimers Dement. 2024 05; 20(5):3397-3405. PMID: 38563508; PMCID: PMC11095441.
    Citations: 1
    Fields: NeuNeurologyPsyPsychiatryTranslation:Humans
  12. Hahn G, Lutz SM, Hecker J, Prokopenko D, Cho MH, Silverman EK, Weiss ST, Lange C. Fast computation of the eigensystem of genomic similarity matrices. BMC Bioinformatics. 2024 Jan 25; 25(1):43. PMID: 38273228; PMCID: PMC10811951.
    Citations:
    Fields: ComComputational Biology
  13. Neumann A, Ohlei O, Küçükali F, Bos IJ, Timsina J, Vos S, Prokopenko D, Tijms BM, Andreasson U, Blennow K, Vandenberghe R, Scheltens P, Teunissen CE, Engelborghs S, Frisoni GB, Blin O, Richardson JC, Bordet R, Lleó A, Alcolea D, Popp J, Marsh TW, Gorijala P, Clark C, Peyratout G, Martinez-Lage P, Tainta M, Dobson RJB, Legido-Quigley C, Van Broeckhoven C, Tanzi RE, Ten Kate M, Lill CM, Barkhof F, Cruchaga C, Lovestone S, Streffer J, Zetterberg H, Visser PJ, Sleegers K, Bertram L, EMIF-AD & ADNI study group. Multivariate GWAS of Alzheimer's disease CSF biomarker profiles implies GRIN2D in synaptic functioning. Genome Med. 2023 10 04; 15(1):79. PMID: 37794492; PMCID: PMC10548686.
    Citations: 5
    Fields: GenGenetics, MedicalTranslation:Humans
  14. Hecker J, Lee S, Kachroo P, Prokopenko D, Maaser-Hecker A, Lutz SM, Hahn G, Irizarry R, Weiss ST, DeMeo DL, Lange C. A consistent pattern of slide effects in Illumina DNA methylation BeadChip array data. Epigenetics. 2023 12; 18(1):2257437. PMID: 37731367; PMCID: PMC11062373.
    Citations: 1
    Fields: GenGeneticsTranslation:Cells
  15. Jorfi M, Park J, Hall CK, Lin CJ, Chen M, von Maydell D, Kruskop JM, Kang B, Choi Y, Prokopenko D, Irimia D, Kim DY, Tanzi RE. Infiltrating CD8+ T cells exacerbate Alzheimer's disease pathology in a 3D human neuroimmune axis model. Nat Neurosci. 2023 09; 26(9):1489-1504. PMID: 37620442; PMCID: PMC11184920.
    Citations: 33
    Fields: NeuNeurologyTranslation:HumansCells
  16. Lee S, Hahn G, Hecker J, Lutz SM, Mullin K, Alzheimer’s Disease Neuroimaging Initiative (ADNI), Hide W, Bertram L, DeMeo DL, Tanzi RE, Lange C, Prokopenko D. A comparison between similarity matrices for principal component analysis to assess population stratification in sequenced genetic data sets. Brief Bioinform. 2023 01 19; 24(1). PMID: 36585781; PMCID: PMC9851291.
    Citations: 3
    Fields: ComComputational Biology
  17. Lee S, Prokopenko D, Kelly RS, Lutz S, Ann Lasky-Su J, Cho MH, Laurie C, Celedón JC, Lange C, Weiss ST, Hecker J, DeMeo DL. Zinc finger protein 33B demonstrates sex interaction with atopy-related markers in childhood asthma. Eur Respir J. 2023 01; 61(1). PMID: 35953101; PMCID: PMC10124713.
    Citations:
    Fields: PulPulmonary MedicineTranslation:HumansCells
  18. Hahn G, Lee S, Prokopenko D, Abraham J, Novak T, Hecker J, Cho M, Khurana S, Baden LR, Randolph AG, Weiss ST, Lange C. Unsupervised outlier detection applied to SARS-CoV-2 nucleotide sequences can identify sequences of common variants and other variants of interest. BMC Bioinformatics. 2022 Dec 19; 23(1):547. PMID: 36536276; PMCID: PMC9761049.
    Citations: 1
    Fields: ComComputational BiologyTranslation:HumansCells
  19. Hecker J, Prokopenko D, Moll M, Lee S, Kim W, Qiao D, Voorhies K, Kim W, Vansteelandt S, Hobbs BD, Cho MH, Silverman EK, Lutz SM, DeMeo DL, Weiss ST, Lange C. A robust and adaptive framework for interaction testing in quantitative traits between multiple genetic loci and exposure variables. PLoS Genet. 2022 11; 18(11):e1010464. PMID: 36383614; PMCID: PMC9668174.
    Citations: 1
    Fields: GenGeneticsTranslation:Humans
  20. Lopatko Lindman K, Jonsson C, Weidung B, Olsson J, Pandey JP, Prokopenko D, Tanzi RE, Hallmans G, Eriksson S, Elgh F, Lövheim H. PILRA polymorphism modifies the effect of APOE4 and GM17 on Alzheimer's disease risk. Sci Rep. 2022 08 02; 12(1):13264. PMID: 35918447; PMCID: PMC9346002.
    Citations: 4
    Fields: SciScienceTranslation:Humans
  21. Morgan SL, Naderi P, Koler K, Pita-Juarez Y, Prokopenko D, Vlachos IS, Tanzi RE, Bertram L, Hide WA. Most Pathways Can Be Related to the Pathogenesis of Alzheimer's Disease. Front Aging Neurosci. 2022; 14:846902. PMID: 35813951; PMCID: PMC9263183.
    Citations: 9
  22. Prokopenko D, Lee S, Hecker J, Mullin K, Morgan S, Katsumata Y, Alzheimer’s Disease Neuroimaging Initiative (ADNI), Weiner MW, Fardo DW, Laird N, Bertram L, Hide W, Lange C, Tanzi RE. Region-based analysis of rare genomic variants in whole-genome sequencing datasets reveal two novel Alzheimer's disease-associated genes: DTNB and DLG2. Mol Psychiatry. 2022 04; 27(4):1963-1969. PMID: 35246634; PMCID: PMC9126808.
    Citations: 10
    Fields: MolMolecular BiologyPsyPsychiatryTranslation:Humans
  23. Prokopenko D, Morgan SL, Lange C, Hide W, Bertram L, Tanzi RE. Reply to Neupane et al.: Replication study of AD-associated rare variants. Alzheimers Dement. 2022 04; 18(4):863-864. PMID: 35142036; PMCID: PMC9302627.
    Citations:
    Fields: NeuNeurologyPsyPsychiatry
  24. Hahn G, Prokopenko D, Lutz SM, Mullin K, Tanzi RE, Cho MH, Silverman EK, Lange C. A Smoothed Version of the Lassosum Penalty for Fitting Integrated Risk Models Using Summary Statistics or Individual-Level Data. Genes (Basel). 2022 01 06; 13(1). PMID: 35052450; PMCID: PMC8775060.
    Citations: 2
    Fields: GenGeneticsTranslation:Humans
  25. Ziyatdinov A, Kim J, Prokopenko D, Privé F, Laporte F, Loh PR, Kraft P, Aschard H. Estimating the effective sample size in association studies of quantitative traits. G3 (Bethesda). 2021 06 17; 11(6). PMID: 33734375; PMCID: PMC8495748.
    Citations: 9
    Fields: GenGeneticsMolMolecular BiologyTranslation:Humans
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.