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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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  1. 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 Nov; 18(11):e1010464. PMID: 36383614; PMCID: PMC9668174.
    Citations:    Fields:    Translation:Humans
  2. 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. 2022 Aug 11. PMID: 35953101.
    Citations:    Fields:    
  3. 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:    Fields:    Translation:Humans
  4. 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:    
  5. Prokopenko D, Lee S, Hecker J, Mullin K, Morgan S, Katsumata Y, 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: 1     Fields:    Translation:Humans
  6. 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:    
  7. 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:    Fields:    Translation:Humans
  8. 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: 1     Fields:    
  9. Zhang X, Zhang CM, Prokopenko D, Liang Y, Zhen SY, Weigle IQ, Han W, Aryal M, Tanzi RE, Sisodia SS. An APP ectodomain mutation outside of the Aß domain promotes Aß production in vitro and deposition in vivo. J Exp Med. 2021 06 07; 218(6). PMID: 33822840; PMCID: PMC8034382.
    Citations: 2     Fields:    Translation:HumansAnimalsCells
  10. Hong S, Dobricic V, Ohlei O, Bos I, Vos SJB, Prokopenko D, Tijms BM, Andreasson U, Blennow K, Vandenberghe R, Gabel S, Scheltens P, Teunissen CE, Engelborghs S, Frisoni G, Blin O, Richardson JC, Bordet R, Lleó A, Alcolea D, Popp J, Clark C, Peyratout G, Martinez-Lage P, Tainta M, Dobson RJB, Legido-Quigley C, Sleegers K, Van Broeckhoven C, Tanzi RE, Ten Kate M, Wittig M, Franke A, Lill CM, Barkhof F, Lovestone S, Streffer J, Zetterberg H, Visser PJ, Bertram L. TMEM106B and CPOX are genetic determinants of cerebrospinal fluid Alzheimer's disease biomarker levels. Alzheimers Dement. 2021 10; 17(10):1628-1640. PMID: 33991015.
    Citations: 3     Fields:    Translation:Humans
  11. Kim W, Prokopenko D, Sakornsakolpat P, Hobbs BD, Lutz SM, Hokanson JE, Wain LV, Melbourne CA, Shrine N, Tobin MD, Silverman EK, Cho MH, Beaty TH. Genome-Wide Gene-by-Smoking Interaction Study of Chronic Obstructive Pulmonary Disease. Am J Epidemiol. 2021 05 04; 190(5):875-885. PMID: 33106845; PMCID: PMC8096488.
    Citations: 4     Fields:    Translation:Humans
  12. Prokopenko D, Morgan SL, Mullin K, Hofmann O, Chapman B, Kirchner R, Amberkar S, Wohlers I, Lange C, Hide W, Bertram L, Tanzi RE. Whole-genome sequencing reveals new Alzheimer's disease-associated rare variants in loci related to synaptic function and neuronal development. Alzheimers Dement. 2021 09; 17(9):1509-1527. PMID: 33797837; PMCID: PMC8519060.
    Citations: 12     Fields:    Translation:Humans
  13. Hong S, Prokopenko D, Dobricic V, Kilpert F, Bos I, Vos SJB, Tijms BM, Andreasson U, Blennow K, Vandenberghe R, Cleynen I, Gabel S, Schaeverbeke J, Scheltens P, Teunissen CE, Niemantsverdriet E, Engelborghs S, Frisoni G, Blin O, Richardson JC, Bordet R, Molinuevo JL, Rami L, Kettunen P, Wallin A, Lleó A, Sala I, Popp J, Peyratout G, Martinez-Lage P, Tainta M, Dobson RJB, Legido-Quigley C, Sleegers K, Van Broeckhoven C, Ten Kate M, Barkhof F, Zetterberg H, Lovestone S, Streffer J, Wittig M, Franke A, Tanzi RE, Visser PJ, Bertram L. Genome-wide association study of Alzheimer's disease CSF biomarkers in the EMIF-AD Multimodal Biomarker Discovery dataset. Transl Psychiatry. 2020 11 22; 10(1):403. PMID: 33223526; PMCID: PMC7680793.
    Citations: 8     Fields:    Translation:Humans
  14. Lomoio S, Willen R, Kim W, Ho KZ, Robinson EK, Prokopenko D, Kennedy ME, Tanzi RE, Tesco G. Gga3 deletion and a GGA3 rare variant associated with late onset Alzheimer's disease trigger BACE1 accumulation in axonal swellings. Sci Transl Med. 2020 11 18; 12(570). PMID: 33208500; PMCID: PMC8612295.
    Citations: 3     Fields:    Translation:AnimalsCells
  15. Prokopenko D, Morgan SL, Mullin K, Hofmann O, Chapman B, Kirchner R, Amberkar S, Wohlers I, Lange C, Hide W, Bertram L, Tanzi RE. Whole-genome sequencing reveals new Alzheimer's disease-associated rare variants in loci related to synaptic function and neuronal development. medRxiv. 2020 Nov 04. PMID: 33173892.
    Citations:    
  16. Zhao X, Qiao D, Yang C, Kasela S, Kim W, Ma Y, Shrine N, Batini C, Sofer T, Taliun SAG, Sakornsakolpat P, Balte PP, Prokopenko D, Yu B, Lange LA, Dupuis J, Cade BE, Lee J, Gharib SA, Daya M, Laurie CA, Ruczinski I, Cupples LA, Loehr LR, Bartz TM, Morrison AC, Psaty BM, Vasan RS, Wilson JG, Taylor KD, Durda P, Johnson WC, Cornell E, Guo X, Liu Y, Tracy RP, Ardlie KG, Aguet F, VanDenBerg DJ, Papanicolaou GJ, Rotter JI, Barnes KC, Jain D, Nickerson DA, Muzny DM, Metcalf GA, Doddapaneni H, Dugan-Perez S, Gupta N, Gabriel S, Rich SS, O'Connor GT, Redline S, Reed RM, Laurie CC, Daviglus ML, Preudhomme LK, Burkart KM, Kaplan RC, Wain LV, Tobin MD, London SJ, Lappalainen T, Oelsner EC, Abecasis GR, Silverman EK, Barr RG, Cho MH, Manichaikul A. Whole genome sequence analysis of pulmonary function and COPD in 19,996 multi-ethnic participants. Nat Commun. 2020 10 14; 11(1):5182. PMID: 33057025; PMCID: PMC7598941.
    Citations: 7     Fields:    Translation:Humans
  17. Cuddy LK, Prokopenko D, Cunningham EP, Brimberry R, Song P, Kirchner R, Chapman BA, Hofmann O, Hide W, Procissi D, Hanania T, Leiser SC, Tanzi RE, Vassar R. Aß-accelerated neurodegeneration caused by Alzheimer's-associated ACE variant R1279Q is rescued by angiotensin system inhibition in mice. Sci Transl Med. 2020 09 30; 12(563). PMID: 32998969.
    Citations: 7     Fields:    Translation:Animals
  18. Hahn G, Lutz SM, Hecker J, Prokopenko D, Cho MH, Silverman EK, Weiss ST, Lange C. locStra: Fast analysis of regional/global stratification in whole-genome sequencing studies. Genet Epidemiol. 2021 02; 45(1):82-98. PMID: 32929743.
    Citations: 2     Fields:    Translation:Humans
  19. Zhang X, Zhang C, Prokopenko D, Liang Y, Han W, Tanzi RE, Sisodia SS. Negative evidence for a role of APH1B T27I variant in Alzheimer's disease. Hum Mol Genet. 2020 04 15; 29(6):955-966. PMID: 31995180.
    Citations: 3     Fields:    Translation:HumansCells
  20. Prokopenko D, Hecker J, Kirchner R, Chapman BA, Hoffman O, Mullin K, Hide W, Bertram L, Laird N, DeMeo DL, Lange C, Tanzi RE. Identification of Novel Alzheimer's Disease Loci Using Sex-Specific Family-Based Association Analysis of Whole-Genome Sequence Data. Sci Rep. 2020 03 19; 10(1):5029. PMID: 32193444.
    Citations: 14     Fields:    Translation:HumansCells
  21. 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, 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. 2019 Jun; 51(6):1067. PMID: 31110354.
    Citations:    Fields:    
  22. 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, 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, Soler Artigas M, 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. New genetic signals for lung function highlight pathways and chronic obstructive pulmonary disease associations across multiple ancestries. Nat Genet. 2019 03; 51(3):481-493. PMID: 30804560; PMCID: PMC6397078.
    Citations: 110     Fields:    Translation:Humans
  23. Sakornsakolpat P, Prokopenko D, Lamontagne M, Reeve NF, Guyatt AL, Jackson VE, Shrine N, Qiao D, Bartz TM, Kim DK, Lee MK, Latourelle JC, Li X, Morrow JD, Obeidat M, Wyss AB, Bakke P, Barr RG, Beaty TH, Belinsky SA, Brusselle GG, Crapo JD, de Jong K, DeMeo DL, Fingerlin TE, Gharib SA, Gulsvik A, Hall IP, Hokanson JE, Kim WJ, Lomas DA, London SJ, Meyers DA, O'Connor GT, Rennard SI, Schwartz DA, Sliwinski P, Sparrow D, Strachan DP, Tal-Singer R, Tesfaigzi Y, Vestbo J, Vonk JM, Yim JJ, Zhou X, Bossé Y, Manichaikul A, Lahousse L, Silverman EK, Boezen HM, Wain LV, Tobin MD, Hobbs BD, Cho MH. Genetic landscape of chronic obstructive pulmonary disease identifies heterogeneous cell-type and phenotype associations. Nat Genet. 2019 03; 51(3):494-505. PMID: 30804561; PMCID: PMC6546635.
    Citations: 94     Fields:    Translation:Humans
  24. Qiao D, Ameli A, Prokopenko D, Chen H, Kho AT, Parker MM, Morrow J, Hobbs BD, Liu Y, Beaty TH, Crapo JD, Barnes KC, Nickerson DA, Bamshad M, Hersh CP, Lomas DA, Agusti A, Make BJ, Calverley PMA, Donner CF, Wouters EF, Vestbo J, Paré PD, Levy RD, Rennard SI, Tal-Singer R, Spitz MR, Sharma A, Ruczinski I, Lange C, Silverman EK, Cho MH. Whole exome sequencing analysis in severe chronic obstructive pulmonary disease. Hum Mol Genet. 2018 11 01; 27(21):3801-3812. PMID: 30060175; PMCID: PMC6196654.
    Citations: 12     Fields:    Translation:Humans
  25. Prokopenko D, Sakornsakolpat P, Fier HL, Qiao D, Parker MM, McDonald MN, Manichaikul A, Rich SS, Barr RG, Williams CJ, Brantly ML, Lange C, Beaty TH, Crapo JD, Silverman EK, Cho MH. Whole-Genome Sequencing in Severe Chronic Obstructive Pulmonary Disease. Am J Respir Cell Mol Biol. 2018 11; 59(5):614-622. PMID: 29949718; PMCID: PMC6236690.
    Citations: 12     Fields:    Translation:Humans
  26. Hecker J, Prokopenko D, Lange C, Fier HL. PolyGEE: a generalized estimating equation approach to the efficient and robust estimation of polygenic effects in large-scale association studies. Biostatistics. 2018 07 01; 19(3):295-306. PMID: 28968646.
    Citations: 2     Fields:    Translation:Humans
  27. Hecker J, Maaser A, Prokopenko D, Fier HL, Lange C. Reporting Correct p Values in VEGAS Analyses. Twin Res Hum Genet. 2017 06; 20(3):257-259. PMID: 28345502.
    Citations: 2     Fields:    Translation:Humans
  28. Loehlein Fier H, Prokopenko D, Hecker J, Cho MH, Silverman EK, Weiss ST, Tanzi RE, Lange C. On the association analysis of genome-sequencing data: A spatial clustering approach for partitioning the entire genome into nonoverlapping windows. Genet Epidemiol. 2017 05; 41(4):332-340. PMID: 28318110; PMCID: PMC5525021.
    Citations: 6     Fields:    Translation:Humans
  29. Prokopenko D, Hecker J, Silverman EK, Pagano M, Nöthen MM, Dina C, Lange C, Fier HL. Utilizing the Jaccard index to reveal population stratification in sequencing data: a simulation study and an application to the 1000 Genomes Project. Bioinformatics. 2016 05 01; 32(9):1366-72. PMID: 26722118.
    Citations: 17     Fields:    Translation:HumansAnimals
  30. Hecker J, Prokopenko D, Lange C, Fier HL. On the Recombination Rate Estimation in the Presence of Population Substructure. PLoS One. 2015; 10(12):e0145152. PMID: 26716445.
    Citations:    Fields:    Translation:Humans
  31. Prokopenko D, Hecker J, Silverman E, Nöthen MM, Schmid M, Lange C, Loehlein Fier H. Using Network Methodology to Infer Population Substructure. PLoS One. 2015; 10(6):e0130708. PMID: 26098940.
    Citations:    Fields:    Translation:Humans
  32. Fier H, Won S, Prokopenko D, AlChawa T, Ludwig KU, Fimmers R, Silverman EK, Pagano M, Mangold E, Lange C. 'Location, Location, Location': a spatial approach for rare variant analysis and an application to a study on non-syndromic cleft lip with or without cleft palate. Bioinformatics. 2012 Dec 01; 28(23):3027-33. PMID: 23044548.
    Citations: 10     Fields:    Translation:HumansCells
  33. Pan'kov SV, Chechetkin VR, Somova OG, Antonova OV, Moiseeva OV, Prokopenko DV, Yurasov RA, Gryadunov DA, Chudinov AV. Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes. J Biomol Struct Dyn. 2009 Oct; 27(2):235-44. PMID: 19583448.
    Citations: 5     Fields:    Translation:Cells
  34. Zasedateleva OA, Mikheikin AL, Turygin AY, Prokopenko DV, Chudinov AV, Belobritskaya EE, Chechetkin VR, Zasedatelev AS. Gel-based oligonucleotide microarray approach to analyze protein-ssDNA binding specificity. Nucleic Acids Res. 2008 Jun; 36(10):e61. PMID: 18474529.
    Citations: 4     Fields:    Translation:Cells
  35. Fesenko DO, Nasedkina TV, Prokopenko DV, Mirzabekov AD. Biosensing and monitoring of cell populations using the hydrogel bacterial microchip. Biosens Bioelectron. 2005 Mar 15; 20(9):1860-5. PMID: 15681206.
    Citations: 4     Fields:    Translation:Cells
  36. Fesenko DO, Nasedkina TV, Chudinov AV, Prokopenko DV, Iurasov RA, Zasedatelev AS. [Alginate gel microchip for real-time monitoring of intracellular processes in bacterial and yeast cells]. Mol Biol (Mosk). 2005 Jan-Feb; 39(1):96-102. PMID: 15773553.
    Citations: 3     Fields:    Translation:AnimalsCells
  37. Chechetkin VR, Prokopenko DV, Zasedateleva OA, Gitelson GI, Lomakin ES, Livshits MA, Malinina L, Turygin AY, Krylov AS, Mirzabekov AD. Analysis of binding specificity of disulfide bonded dimeric lambda-Cro V55C protein with generic hexamer oligonucleotide microchip. J Biomol Struct Dyn. 2003 Dec; 21(3):425-33. PMID: 14616037.
    Citations: 1     Fields:    Translation:Cells
  38. Khomiakova EB, Livshits MA, Sharonov AIu, Prokopenko DV, Mirzabekov AD. [Analysis of perfect and mismatched DNA duplexes by a generic hexanucleotide microchip]. Mol Biol (Mosk). 2003 Jul-Aug; 37(4):726-41. PMID: 12942647.
    Citations: 1     Fields:    
  39. Zasedateleva OA, Krylov AS, Prokopenko DV, Skabkin MA, Ovchinnikov LP, Kolchinsky A, Mirzabekov AD. Specificity of mammalian Y-box binding protein p50 in interaction with ss and ds DNA analyzed with generic oligonucleotide microchip. J Mol Biol. 2002 Nov 15; 324(1):73-87. PMID: 12421560.
    Citations: 20     Fields:    Translation:AnimalsCells
  40. Krylov AS, Zasedateleva OA, Prokopenko DV, Rouviere-Yaniv J, Mirzabekov AD. Massive parallel analysis of the binding specificity of histone-like protein HU to single- and double-stranded DNA with generic oligodeoxyribonucleotide microchips. Nucleic Acids Res. 2001 Jun 15; 29(12):2654-60. PMID: 11410675; PMCID: PMC55728.
    Citations: 20     Fields:    Translation:Cells
  41. Vasiliskov VA, Prokopenko DV, Mirzabekov AD. Parallel multiplex thermodynamic analysis of coaxial base stacking in DNA duplexes by oligodeoxyribonucleotide microchips. Nucleic Acids Res. 2001 Jun 01; 29(11):2303-13. PMID: 11376149; PMCID: PMC55716.
    Citations: 13     Fields:    Translation:Cells
  42. Chechetkin VR, Turygin AY, Proudnikov DY, Prokopenko DV, Kirillov EV, Mirzabekov AD. Sequencing by hybridization with the generic 6-mer oligonucleotide microarray: an advanced scheme for data processing. J Biomol Struct Dyn. 2000 Aug; 18(1):83-101. PMID: 11021654.
    Citations: 7     Fields:    Translation:Cells
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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.