A photo of Alexey Porollo.

Member, Center for Autoimmune Genomics and Etiology

Member, Division of Biomedical Informatics

Associate Professor, UC Department of Pediatrics


Biography & Affiliation


Dr. Porollo is a computational biologist with research focused on the development of new prediction and analytical methods in structural bioinformatics. Applications of computational approaches include structural and functional characterization of proteins and their mutations, rational protein engineering, analysis of biological pathways, identification of new drug targets, virtual drug screening, and microbiome analysis.

Academic Affiliation

Associate Professor, UC Department of Pediatrics


Biomedical Informatics


MSc: Mari State University, Yoshkar-Ola, Russia, 1995.

PhD: Tver State University, Tver and Mari State University, Yoshkar-Ola, Russia, 1999.

Post-doc: Children’s Hospital Medical Center, Cincinnati, OH, 2006.


Selected Publication

Gene Expression of Pneumocystis murina after Treatment with Anidulafungin Results in Strong Signals for Sexual Reproduction, Cell Wall Integrity, and Cell Cycle Arrest, Indicating a Requirement for Ascus Formation for Proliferation. Cushion, MT; Ashbaugh, A; Hendrix, K; Linke, MJ; Tisdale, N; Sayson, SG; Porollo, A. Antimicrobial Agents and Chemotherapy. 2018; 62.

A fast and robust protocol for metataxonomic analysis using RNAseq data. Cox, JW; Ballweg, RA; Taft, DH; Velayutham, P; Haslam, DB; Porollo, A. Microbiome. 2017; 5.

A quantitative model to estimate drug resistance in pathogens. Baker, FN; Cushion, MT; Porollo, A. Journal of Fungi. 2016; 2:30-30.

CoeViz: a web-based tool for coevolution analysis of protein residues. Baker, FN; Porollo, A. BMC Bioinformatics. 2016; 17.

MutaCYP: Classification of missense mutations in human cytochromes P450. Fechter, K; Porollo, A. BMC Medical Genomics. 2014; 7.

EC2KEGG: A command line tool for comparison of metabolic pathways. Porollo, A. Source Code for Biology and Medicine. 2014; 9.

Comparative Genomics of Pneumocystis Species Suggests the Absence of Genes for myo-Inositol Synthesis and Reliance on Inositol Transport and Metabolism. Porollo, A; Sesterhenn, TM; Collins, MS; Welge, JA; Cushion, MT. mBio. 2014; 5.

Rational engineering of the fungal P450 monooxygenase CYP5136A3 to improve its oxidizing activity toward polycyclic aromatic hydrocarbons. Syed, K; Porollo, A; Miller, D; Yadav, JS. Protein Engineering, Design and Selection. 2013; 26:553-557.

Prediction-based fingerprints of protein-protein interactions. Porollo, A; Meller, J. Proteins: Structure, Function, and Bioinformatics. 2007; 66:630-645.

Accurate prediction of solvent accessibility using neural networks-based regression. Adamczak, R; Porollo, A; Meller, J. Proteins: Structure, Function, and Bioinformatics. 2004; 56:753-767.