Publications by authors named "Yuriy Fofanov"

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Identification of multivariable Boolean patterns in microbiome and microbial gene composition data.
George Golovko, Kamil Khanipov, Victor Reyes, Irina Pinchuk, Yuriy Fofanov

Biosystems· November 2023

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Impairment of Tissue-Resident Mesenchymal Stem Cells in Chronic Ulcerative Colitis and Crohn's Disease.
Carl Grim, Robert Noble, Gabriela Uribe, Kamil Khanipov, Paul Johnson, Yuriy Fofanov

J Crohns Colitis· August 2021

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Identification of multidimensional Boolean patterns in microbial communities.
George Golovko, Khanipov Kamil, Levent Albayrak, Anna M Nia, Renato Salomon Arroyo Duarte, Yuriy Fofanov

Microbiome· September 2020

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Comparative transcriptomic analysis of Rickettsia conorii during in vitro infection of human and tick host cells.
Hema P Narra, Abha Sahni, Jessica Alsing, Casey L C Schroeder, George Golovko, Yuriy Fofanov

BMC Genomics· September 2020

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Measuring Alphavirus Fidelity Using Non-Infectious Virus Particles.
Edward I Patterson, Kamil Khanipov, Daniele M Swetnam, Samantha Walsdorf, Tiffany F Kautz, Yuriy Fofanov

Viruses· May 2020

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Interleukin-33 Promotes REG3γ Expression in Intestinal Epithelial Cells and Regulates Gut Microbiota.
Yi Xiao, Xiangsheng Huang, Ye Zhao, Feidi Chen, Mingming Sun, Yuriy Fofanov

Cell Mol Gastroenterol Hepatol· April 2020

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Matrix metalloproteinases cleave membrane-bound PD-L1 on CD90+ (myo-)fibroblasts in Crohn's disease and regulate Th1/Th17 cell responses.
Jose E Aguirre, Ellen J Beswick, Carl Grim, Gabriela Uribe, Marissa Tafoya, Yuriy Fofanov

Int Immunol· January 2020

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16S rRNA gene profiling and genome reconstruction reveal community metabolic interactions and prebiotic potential of medicinal herbs used in neurodegenerative disease and as nootropics.
Christine Tara Peterson, Vandana Sharma, Stanislav N Iablokov, Levent Albayrak, Kamil Khanipov, Yuriy Fofanov

PLoS One· December 2019

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Enhancer Associated Long Non-coding RNA Transcription and Gene Regulation in Experimental Models of Rickettsial Infection.
Imran H Chowdhury, Hema P Narra, Abha Sahni, Kamil Khanipov, Yuriy Fofanov

Front Immunol· October 2019

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species with evidence of genomic polymorphism isolated from resected heart valve in a patient with aortic stenosis.
Lile Malania, Ying Bai, Kamil Khanipov, Marika Tsereteli, Mikheil Metreveli, Yuriy Fofanov

Infect Dis Rep· September 2019

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Viral RNA-dependent RNA polymerase mutants display an altered mutation spectrum resulting in attenuation in both mosquito and vertebrate hosts.
K Lane Warmbrod, Edward I Patterson, Tiffany F Kautz, Adam Stanton, Dedeke Rockx-Brouwer, Yuriy Fofanov

PLoS Pathog· April 2019

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Global Transcriptomic Profiling of Pulmonary Gene Expression in an Experimental Murine Model of Infection.
Hema P Narra, Abha Sahni, Kamil Khanipov, Yuriy Fofanov, Sanjeev K Sahni

Genes (Basel)· March 2019

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Broom: application for non-redundant storage of high throughput sequencing data.
Levent Albayrak, Kamil Khanipov, George Golovko, Yuriy Fofanov

Bioinformatics· January 2019

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Detection of multi-dimensional co-exclusion patterns in microbial communities.
Levent Albayrak, Kamil Khanipov, George Golovko, Yuriy Fofanov

Bioinformatics· November 2018

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Novel strains in malaria vectors from Sub-Saharan Africa.
Claire L Jeffries, Gena G Lawrence, George Golovko, Mojca Kristan, James Orsborne, Yuriy Fofanov

Wellcome Open Res· November 2018

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Microbiota dysbiosis and its pathophysiological significance in bowel obstruction.
Shrilakshmi Hegde, You-Min Lin, George Golovko, Kamil Khanipov, Yingzi Cong, Yuriy Fofanov

Sci Rep· September 2018

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S-plot2: Rapid Visual and Statistical Analysis of Genomic Sequences.
Laurynas Kalesinskas, Evan Cudone, Yuriy Fofanov, Catherine Putonti

Evol Bioinform Online· September 2018

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Microbiome Interaction Networks and Community Structure From Laboratory-Reared and Field-Collected , , and Mosquito Vectors.
Shivanand Hegde, Kamil Khanipov, Levent Albayrak, George Golovko, Maria Pimenova, Yuriy Fofanov

Front Microbiol· September 2018

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Expression Profiling of Long Noncoding RNA Splice Variants in Human Microvascular Endothelial Cells: Lipopolysaccharide Effects .
Imran H Chowdhury, Hema P Narra, Abha Sahni, Kamil Khanipov, Casey L C Schroeder, Yuriy Fofanov

Mediators Inflamm· July 2018

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GPR43 mediates microbiota metabolite SCFA regulation of antimicrobial peptide expression in intestinal epithelial cells via activation of mTOR and STAT3.
Ye Zhao, Feidi Chen, Wei Wu, Mingming Sun, Anthony J Bilotta, Yuriy Fofanov

Mucosal Immunol· May 2018

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Assessing the utility of metabarcoding for diet analyses of the omnivorous wild pig ().
Michael S Robeson, Kamil Khanipov, George Golovko, Samantha M Wisely, Michael D White, Yuriy Fofanov

Ecol Evol· January 2018

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Mosquito bottlenecks alter viral mutant swarm in a tissue and time-dependent manner with contraction and expansion of variant positions and diversity.
Edward I Patterson, Kamil Khanipov, Mark M Rojas, Tiffany F Kautz, Dedeke Rockx-Brouwer, Yuriy Fofanov

Virus Evol· January 2018

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Low-fidelity Venezuelan equine encephalitis virus polymerase mutants to improve live-attenuated vaccine safety and efficacy.
Tiffany F Kautz, Mathilde Guerbois, Kamil Khanipov, Edward I Patterson, Rose M Langsjoen, Yuriy Fofanov

Virus Evol· January 2018

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Transcriptional profiling of Rickettsia prowazekii coding and non-coding transcripts during in vitro host-pathogen and vector-pathogen interactions.
Casey L C Schroeder, Hema P Narra, Abha Sahni, Kamil Khanipov, Jignesh Patel, Yuriy Fofanov

Ticks Tick Borne Dis· October 2017

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Draft Genome Sequence of ZD1 (JCM 13380), a Salt-Tolerant Denitrifying Bacterium Capable of Producing Poly(3-Hydroxybutyrate).
Yu-Wei Wu, Yiru Shao, Kamil Khanipov, Georgiy Golovko, Maria Pimenova, Yuriy Fofanov

Genome Announc· September 2017

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