Find Research outputs

Search results

• 16S rRNA gene profiling and genome reconstruction reveal community metabolic interactions and prebiotic potential of medicinal herbs used in neurodegenerative disease and as nootropics

  Peterson, C. T., Sharma, V., Iablokov, S. N., Albayrak, L., Khanipov, K., Uchitel, S., Chopra, D., Mills, P. J., Fofanov, Y., Rodionov, D. A. & Peterson, S. N., Mar 2019, In: PloS one. 14, 3, e0213869.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Neurodegenerative diseases
  • Nootropic Agents
  • Prebiotics
  • neurodegenerative diseases
  • prebiotics
  5 Scopus citations

• Broom: application for non-redundant storage of high throughput sequencing data

  Albayrak, L., Khanipov, K., Golovko, G. & Fofanov, Y., Jan 1 2019, In: Bioinformatics (Oxford, England). 35, 1, p. 143-145 3 p.

  Research output: Contribution to journal › Article › peer-review

  • High Throughput
  • Sequencing
  • Computational Biology
  • Information Storage and Retrieval
  • Research Personnel
  2 Scopus citations

• Draft genome sequence of Zobellella denitrificans ZD1 (JCM 13380), a salt-tolerant denitrifying bacterium capable of producing poly(3-hydroxybutyrate)

  Wu, Y. W., Shao, Y., Khanipov, K., Golovko, G., Pimenova, M., Fofanov, Y. & Chu, K. H., 2017, In: Genome Announcements. 5, 36, e00948-17.

  Research output: Contribution to journal › Article › peer-review

  • poly-beta-hydroxybutyrate
  • Biopolymers
  • Base Composition
  • Ecosystem
  • Taiwan
  4 Scopus citations

• Enhancer associated long non-coding RNA transcription and gene regulation in experimental models of rickettsial infection

  Chowdhury, I. H., Narra, H. P., Sahni, A., Khanipov, K., Fofanov, Y. & Sahni, S. K., 2019, In: Frontiers in immunology. 10, JAN, 3014.

  Research output: Contribution to journal › Article › peer-review

  • Long Noncoding RNA
  • Theoretical Models
  • Spotted Fever Group Rickettsiosis
  • Infection
  • Rickettsia
  3 Scopus citations

• Exploration of natural alignment scoring rules and clustering thresholds for bacterial core/pan genome analysis

  Albayrak, L., Khanipov, K., Rojas, M., Golovko, G., Pimenova, M., Fofanov, Y. & Kosoy, M., Jul 1 2017, Proceedings - 2017 IEEE 17th International Conference on Bioinformatics and Bioengineering, BIBE 2017. Institute of Electrical and Electronics Engineers Inc., p. 249-254 6 p. (Proceedings - 2017 IEEE 17th International Conference on Bioinformatics and Bioengineering, BIBE 2017; vol. 2018-January).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Scoring
  • Alignment
  • Genome
  • Gene
  • Clustering
  1 Scopus citations

• Expression Profiling of Long Noncoding RNA Splice Variants in Human Microvascular Endothelial Cells: Lipopolysaccharide Effects in Vitro

  Chowdhury, I. H., Narra, H. P., Sahni, A., Khanipov, K., Schroeder, C. L. C., Patel, J., Fofanov, Y. & Sahni, S. K., 2017, In: Mediators of inflammation. 2017, 3427461.

  Research output: Contribution to journal › Article › peer-review

  • Long Noncoding RNA
  • Lipopolysaccharides
  • Endothelial Cells
  • In Vitro Techniques
  • Genome
  12 Scopus citations

• Global transcriptomic profiling of pulmonary gene expression in an experimental murine model of Rickettsia conorii infection

  Narra, H. P., Sahni, A., Khanipov, K., Fofanov, Y. & Sahni, S. K., Mar 2019, In: Genes. 10, 3, 204.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Boutonneuse Fever
  • Gene Expression Profiling
  • Theoretical Models
  • aconitate decarboxylase
  • Lung
  1 Scopus citations

• Janibacterspecies with evidence of genomic polymorphism isolated from resected heart valve in a patient with aortic stenosis

  Malania, L., Bai, Y., Khanipov, K., Tsereteli, M., Metreveli, M., Tsereteli, D., Sidamonidze, K., Imnadze, P., Fofanov, Y. & Kosoy, M., 2019, In: Infectious Disease Reports. 11, 2, p. 22-25 4 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Aortic Valve Stenosis
  • Bacteria
  • Whole Genome Sequencing
  • Aortic Valve
  • Agar

• Nasopharyngeal microbiota in infants and changes during viral upper respiratory tract infection and acute otitis media

  Chonmaitree, T., Jennings, K., Golovko, G., Khanipov, K., Pimenova, M., Patel, J. A., McCormick, D. P., Loeffelholz, M. J. & Fofanov, Y., Jul 2017, In: PloS one. 12, 7, e0180630.

  Research output: Contribution to journal › Article › peer-review

  • Probiotics
  • otitis media
  • Pathogens
  • Bacteria
  • Otitis Media
  37 Scopus citations

• Novel computational approach for identification of highly mutated integrated HIV genomes

  Khanipov, K., Albayrak, L., Golovko, G., Pimenova, M., Ioannis, P., Fofanov, Y., Khanipov, K. & Pavlidis, I., Jul 1 2017, Proceedings - 2017 IEEE 17th International Conference on Bioinformatics and Bioengineering, BIBE 2017. Institute of Electrical and Electronics Engineers Inc., p. 246-248 3 p. (Proceedings - 2017 IEEE 17th International Conference on Bioinformatics and Bioengineering, BIBE 2017; vol. 2018-January).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Viruses
  • Genome
  • Virus
  • Genes
  • Human

• Transcriptional profiling of Rickettsia prowazekii coding and non-coding transcripts during in vitro host-pathogen and vector-pathogen interactions

  Schroeder, C. L. C., Narra, H. P., Sahni, A., Khanipov, K., Patel, J., Fofanov, Y. & Sahni, S. K., Oct 2017, In: Ticks and Tick-borne Diseases. 8, 6, p. 827-836 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Rickettsia prowazekii
  • pathogens
  • Epidemic Louse-Borne Typhus
  • In Vitro Techniques
  • infection
  10 Scopus citations

• Viral RNA-dependent RNA polymerase mutants display an altered mutation spectrum resulting in attenuation in both mosquito and vertebrate hosts

  Lane Warmbrod, K., Patterson, E. I., Kautz, T. F., Stanton, A., Rockx-Brouwer, D., Kalveram, B. K., Khanipov, K., Thangamani, S., Fofanov, Y. & Forrester, N. L., 2019, In: PLoS pathogens. 15, 4, e1007610.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • RNA Replicase
  • Viral RNA
  • Culicidae
  • Vertebrates
  • Mutation Rate
  8 Scopus citations