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  • Kamil Khanipov
2017

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 journalArticle

7 Scopus citations
2016

Identification and characterization of novel small RNAs in Rickettsia prowazekii

Schroeder, C. L. C., Narra, H. P., Sahni, A., Rojas, M., Khanipov, K., Patel, J., Shah, R., Fofanov, Y. & Sahni, S. K., 2016, In : Frontiers in Microbiology. 7, JUN, 859.

Research output: Contribution to journalArticle

11 Scopus citations
2017

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 journalArticle

3 Scopus citations
2016

The ability of human nuclear DNA to cause false positive low-abundance heteroplasmy calls varies across the mitochondrial genome

Albayrak, L., Khanipov, K., Pimenova, M., Golovko, G., Rojas, M., Pavlidis, I., Chumakov, S., Aguilar, G., Chávez, A., Widger, W. R. & Fofanov, Y., Dec 12 2016, In : BMC Genomics. 17, 1, 1017.

Research output: Contribution to journalArticle

10 Scopus citations
2017

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 journalArticle

10 Scopus citations
2018

Microbiota dysbiosis and its pathophysiological significance in bowel obstruction

Hegde, S., Lin, Y. M., Golovko, G., Khanipov, K., Cong, Y., Savidge, T., Fofanov, Y. & Shi, X. Z., Dec 1 2018, In : Scientific reports. 8, 1, 13044.

Research output: Contribution to journalArticle

8 Scopus citations
2019

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 journalArticle

Open Access
3 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 journalArticle

Open Access

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 journalArticle

2 Scopus citations
2018

Assessing the utility of metabarcoding for diet analyses of the omnivorous wild pig (Sus scrofa)

Robeson, M. S., Khanipov, K., Golovko, G., Wisely, S. M., White, M. D., Bodenchuck, M., Smyser, T. J., Fofanov, Y., Fierer, N. & Piaggio, A. J., Jan 2018, In : Ecology and Evolution. 8, 1, p. 185-196 12 p.

Research output: Contribution to journalArticle

10 Scopus citations
2019

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 journalArticle

Open Access
2017

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 journalArticle

30 Scopus citations
2018

Microbiome interaction networks and community structure from laboratory-reared and field-collected Aedes aegypti, Aedes albopictus, and Culex quinquefasciatus mosquito vectors

Hegde, S., Khanipov, K., Albayrak, L., Golovko, G., Pimenova, M., Saldaña, M. A., Rojas, M. M., Hornett, E. A., Motl, G. C., Fredregill, C. L., Dennett, J. A., Debboun, M., Fofanov, Y. & Hughes, G. L., Sep 10 2018, In : Frontiers in Microbiology. 9, SEP, 2160.

Research output: Contribution to journalArticle

19 Scopus citations

Detection of multi-dimensional co-exclusion patterns in microbial communities

Albayrak, L., Khanipov, K., Golovko, G. & Fofanov, Y., Nov 1 2018, In : Bioinformatics (Oxford, England). 34, 21, p. 3695-3701 7 p.

Research output: Contribution to journalArticle

4 Scopus citations
2019

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 journalArticle

2 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 journalArticle

Open Access
4 Scopus citations
2016

Small Regulatory RNAs of Rickettsia conorii

Narra, H. P., Schroeder, C. L. C., Sahni, A., Rojas, M., Khanipov, K., Fofanov, Y. & Sahni, S. K., Nov 11 2016, In : Scientific reports. 6, 36728.

Research output: Contribution to journalArticle

15 Scopus citations
2018

Novel wolbachia strains in anopheles malaria vectors from sub-saharan africa [version 2; referees: 3 approved]

Jeffries, C. L., Lawrence, G. G., Golovko, G., Kristan, M., Orsborne, J., Spence, K., Hurn, E., Bandibabone, J., Tantely, L. M., Raharimalala, F. N., Keita, K., Camara, D., Barry, Y., Wat’senga, F., Manzambi, E. Z., Afrane, Y. A., Mohammed, A. R., Abeku, T. A., Hegde, S., Khanipov, K. & 6 others, Pimenova, M., Fofanov, Y., Boyer, S., Irish, S. R., Hughes, G. L. & Walker, T., 2018, In : Wellcome Open Research. 3, 113.

Research output: Contribution to journalArticle

Open Access
16 Scopus citations
2017

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 proceedingConference contribution

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 proceedingConference contribution

1 Scopus citations