Alexey Porollo

Assistant Professor

Division: Biostatistics and Bioinformatics

E-Mail: alexey.porollo@uc.edu
Phone: 513-558-0809
Location: 316 Kettering Lab
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Alexey Porollo

Dr. Porollo’s research is focused on the development of new prediction methods and analytical tools in structural bioinformatics. He is particularly interested in protein structure prediction (prediction methods SABLE and MINNOU), identification and analysis of protein-protein, as well as protein-ligand, interactions (SPPIDER and POLYVIEW platform) in the context of environmental stimuli and insults. Applications of the computational approaches, with high medical significance, include structural and functional characterization of proteins, assessment of the impact of missense mutations on human health (MutaCYP), identification of alternative drug targets, virtual drug screening, and evaluation of potential toxic effects as part of gene-environment interaction.

Dr. Porollo’s research includes a number of interdisciplinary, both intra- and interdepartmental, projects. Collaborative efforts embrace the following studies: (i) comparative genomics and metatranscriptome analysis of Pneumocystis species in the efforts to develop a long term in vitro culture medium for this obligate fungus and to characterize its host specificity; (ii) discovery of new drugs for anti-Pneumocystis therapy via a large-scale virtual screening and novel targets; (iii) structural characterization and deorphanization of the fungal cytochrome P450s (CYPs) in the in white rot fungus (Phanerochaete chrysosporium); (iv) analysis of metalloproteome of human macrophages involved in defense against fungal infection.



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  • Education

    Children’s Hospital Medical Center, Cincinnati, OH, USA; 2005 PostDoc in Bioinformatics

    Tver State University, Tver, Russia; 1999 PhD in Chemistry

    Mari State University, Yoshkar-Ola, Russia; 1995 MSc in Chemistry

    Awards

    2009: Next Generation Biomedical Investigator award, CEG, University of Cincinnati (USA)

    2007: University of Cincinnati Research Council award (USA)

    2002: German Academic Exchange Service (DAAD) one year scholarship (Germany)

    1997: Mari El Republic Presidential post-graduate fellowship (Russia)

    Professional Experience

    2013-present: Assistant Professor, Center for Autoimmune Genomics and Etiology, Children’s Hosp Med Ctr, Cincinnati, OH, USA

    2006-2013: Research Assistant Professor, University of Cincinnati, Cincinnati, OH, USA

    2005-2006: Research Associate, Children’s Hospital Research Foundation, Cincinnati, OH, USA

    2002-2005: Postdoctoral Research Fellow, Children’s Hospital Res. Found., Cincinnati, OH, USA

    2000-2002: Researcher, Mari State University, Yoshkar-Ola, Russia

    1999-2002: Senior Lecturer, Mari State University, Yoshkar-Ola, Russia

    1994-1999: Junior Researcher, Mari State University, Yoshkar-Ola, Russia

    Grants

    R01CA15832305/01/2012-03/31/2017. National Cancer Institute. Studies of Lymphoma Suppression and DNA Repair, Collaborator, Active.

    R01 AI10626905/15/2013-04/30/2018. National Institute of Allergy and Infectious Diseases. GM-CSF-Induced Metal Sequestration and Histoplasma, Collaborator, Active.

    R01 HL11919005/22/2013-02/28/2018. National Heart, Lung and Blood Institute. Directed Culturing of Pneumocystis Using Metatranscriptomics, Collaborator, Active.

    P30ES00609604/01/2013-03/31/2018. National Institute of Environmental Health Sciences. Environmental Genetics, Collaborator, Active.

    R21AI09793608/06/2013-07/31/2015. National Institute of Allergy and Infectious Diseases. Norovirus Capsid: A Novel Drug Target, Collaborator, Awarded.

    Selected Publications

    Porollo A, Sesterhenn TM, Collins MS, Welge JA, Cushion MT (2014) Comparative Genomics of Pneumocystis Species Suggests the Absence of Genes for myo-Inositol Synthesis and Reliance on Inositol Transport and Metabolism. MBio 5(6):e01834-14.

    Fechter K, Porollo A (2014) MutaCYP: Classification of missense mutations in human cytochromes P450. BMC Med Genomics 7(1):47.

    Subramanian Vignesh K, Landero Figueroa JA, Porollo A, Caruso JA, Deepe GS Jr (2013) Granulocyte macrophage-colony stimulating factor induced Zn sequestration enhances macrophage superoxide and limits intracellular pathogen survival. Immunity. 39(4):697-710.

    Syed K*, Porollo A*, Miller D, Yadav JS (2013) Rational engineering of the fungal P450 monooxygenase CYP5136A3 to improve its oxidizing activity toward polycyclic aromatic hydrocarbons. Protein Eng Des Sel. 26(9):553-557.

    Syed K, Porollo A, Lam YW, Grimmett PE, Yadav JS. (2013) CYP63A2, a Catalytically Versatile Fungal P450 Monooxygenase Capable of Oxidizing Higher-Molecular-Weight Polycyclic Aromatic Hydrocarbons, Alkylphenols, and Alkanes. Appl Environ Microbiol 79, 2692-2702.

    Ma L, Tao Y, Duran A, Llado V, Galvez A, Barger JF, Castilla EA, Chen J, Yajima T, Porollo A, Medvedovic M, Brill LM, Plas DR, Riedl SJ, Leitges M, Diaz-Meco MT, Richardson AD, Moscat J. (2013) Control of Nutrient Stress-Induced Metabolic Reprogramming by PKCζ in Tumorigenesis. Cell 152, 599-611.

    A. Porollo, J. Meller, Y. Joshi, V. Jaiswal, A.G. Smulian, M.T. Cushion (2012) Analysis of Current Antifungal Agents and Their Targets within the Pneumocystis carinii Genome. Curr Drug Targets 13, 1575-1585.

    A. Duran, R. Amanchy, J.F. Linares, J. Joshi, S. Abu-Baker, A. Porollo, M. Hansen, J. Moscat, M.T. Diaz-Meco (2011) p62 is a key regulator of nutrient sensing in the mTORC1 pathway. Mol Cell 44, 134-146.

    A. Porollo, J. Meller (2007) Prediction-based Fingerprints of Protein-Protein Interactions. Proteins 66, 630-645.

    A. Porollo, J. Meller (2007) Versatile Annotation and Publication Quality Visualization of Protein Complexes Using POLYVIEW-3D. BMC Bioinformatics 8, 316 (1-8).

    R. Adamczak, A. Porollo, J. Meller (2004) Accurate Prediction of Solvent Accessibility Using Neural Networks Based Regression. Proteins 56, 753-767.