Peter Kharchenko

Peter Kharchenko, PhD

Research Collaborator
Former Associate Professor of Biomedical Informatics

Peter Kharchenko received a PhD in biophysics at Harvard University, studying gene regulation and metabolic networks under the advisement of George Church. He then completed a four-year postdoctoral fellowship in computational biology and genomics in the laboratory of DBMI's Peter Park. As a former Gilbert S. Omenn Associate Professor of Biomedical Informatics, he studied the epigenetic mechanisms that regulate the growth and maintenance of normal tissues as well as the disruptions of the epigenetic state that contribute to a variety of disorders.

Identification of epilepsy-associated neuronal subtypes and gene expression underlying epileptogenesis.
Authors: Pfisterer U, Petukhov V, Demharter S, Meichsner J, Thompson JJ, Batiuk MY, Asenjo-Martinez A, Vasistha NA, Thakur A, Mikkelsen J, Adorjan I, Pinborg LH, Pers TH, von Engelhardt J, Kharchenko PV, Khodosevich K.
Nat Commun
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Dental cell type atlas reveals stem and differentiated cell types in mouse and human teeth.
Authors: Krivanek J, Soldatov RA, Kastriti ME, Chontorotzea T, Herdina AN, Petersen J, Szarowska B, Landova M, Matejova VK, Holla LI, Kuchler U, Zdrilic IV, Vijaykumar A, Balic A, Marangoni P, Klein OD, Neves VCM, Yianni V, Sharpe PT, Harkany T, Metscher BD, Bajénoff M, Mina M, Fried K, Kharchenko PV, Adameyko I.
Nat Commun
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Distinct evolutionary paths in chronic lymphocytic leukemia during resistance to the graft-versus-leukemia effect.
Authors: Bachireddy P, Ennis C, Nguyen VN, Gohil SH, Clement K, Shukla SA, Forman J, Barkas N, Freeman S, Bavli N, Elagina L, Leshchiner I, Mohammad AW, Mathewson ND, Keskin DB, Rassenti LZ, Kipps TJ, Brown JR, Getz G, Ho VT, Gnirke A, Neuberg D, Soiffer RJ, Ritz J, Alyea EP, Kharchenko PV, Wu CJ.
Sci Transl Med
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National Cancer Institute Think-Tank Meeting Report on Proteomic Cartography and Biomarkers at the Single-Cell Level: Interrogation of Premalignant Lesions.
Authors: Kagan J, Moritz RL, Mazurchuk R, Lee JH, Kharchenko PV, Rozenblatt-Rosen O, Ruppin E, Edfors F, Ginty F, Goltsev Y, Wells JA, LaCava J, Riesterer JL, Germain RN, Shi T, Chee MS, Budnik BA, Yates JR, Chait BT, Moffitt JR, Smith RD, Srivastava S.
J Proteome Res
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Joint analysis of heterogeneous single-cell RNA-seq dataset collections.
Authors: Barkas N, Petukhov V, Nikolaeva D, Lozinsky Y, Demharter S, Khodosevich K, Kharchenko PV.
Nat Methods
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Spatiotemporal structure of cell fate decisions in murine neural crest.
Authors: Soldatov R, Kaucka M, Kastriti ME, Petersen J, Chontorotzea T, Englmaier L, Akkuratova N, Yang Y, Häring M, Dyachuk V, Bock C, Farlik M, Piacentino ML, Boismoreau F, Hilscher MM, Yokota C, Qian X, Nilsson M, Bronner ME, Croci L, Hsiao WY, Guertin DA, Brunet JF, Consalez GG, Ernfors P, Fried K, Kharchenko PV, Adameyko I.
Science
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Cell Kinetics in the Adult Neurogenic Niche and Impact of Diet-Induced Accelerated Aging.
Authors: Stankiewicz AJ, Mortazavi F, Kharchenko PV, McGowan EM, Kharchenko V, Zhdanova IV.
J Neurosci
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RNA velocity of single cells.
Authors: La Manno G, Soldatov R, Zeisel A, Braun E, Hochgerner H, Petukhov V, Lidschreiber K, Kastriti ME, Lönnerberg P, Furlan A, Fan J, Borm LE, Liu Z, van Bruggen D, Guo J, He X, Barker R, Sundström E, Castelo-Branco G, Cramer P, Adameyko I, Linnarsson S, Kharchenko PV.
Nature
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Linking transcriptional and genetic tumor heterogeneity through allele analysis of single-cell RNA-seq data.
Authors: Fan J, Lee HO, Lee S, Ryu DE, Lee S, Xue C, Kim SJ, Kim K, Barkas N, Park PJ, Park WY, Kharchenko PV.
Genome Res
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dropEst: pipeline for accurate estimation of molecular counts in droplet-based single-cell RNA-seq experiments.
Authors: Petukhov V, Guo J, Baryawno N, Severe N, Scadden DT, Samsonova MG, Kharchenko PV.
Genome Biol
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