Machine learning and phylogenetic analysis allow for predicting antibiotic resistance in M. tuberculosis
A. Yurtseven, S. Buyanova, A.A.A. Agrawal, O. Bochkareva, O.V.V. Kalinina, BMC Microbiology 23 (2023).
LibreCat: https://research-explorer.ista.ac.at/record/14716
DOI: 10.1186/s12866-023-03147-7
PMID: 38124060

PaReBrick: PArallel REarrangements and BReaks identification toolkit
A. Zabelkin, Y. Yakovleva, O. Bochkareva, N. Alexeev, Bioinformatics 38 (2022) 357–363.
LibreCat: https://research-explorer.ista.ac.at/record/10927
DOI: 10.1093/bioinformatics/btab691
WoS: 000743380100008

Chromosome-encoded IpaH ubiquitin ligases indicate non-human enteroinvasive Escherichia
N. Dranenko, M. Tutukina, M. Gelfand, F. Kondrashov, O. Bochkareva, Scientific Reports 12 (2022).
LibreCat: https://research-explorer.ista.ac.at/record/11344
DOI: 10.1038/s41598-022-10827-3
WoS: 000788639400032
PMID: 35477739

High rates of genome rearrangements and pathogenicity of Shigella spp
Z. Seferbekova, A. Zabelkin, Y. Yakovleva, R. Afasizhev, N.O. Dranenko, N. Alexeev, M.S. Gelfand, O. Bochkareva, Frontiers in Microbiology 12 (2021).
LibreCat: https://research-explorer.ista.ac.at/record/9380
DOI: 10.3389/fmicb.2021.628622
WoS: 000643713300001

Characterization of methanosarcina mazei JL01 isolated from holocene arctic permafrost and study of the archaeon cooperation with bacterium Sphaerochaeta associata GLT
V. Oshurkova, O. Troshina, V. Trubitsyn, Y. Ryzhmanova, O. Bochkareva, V. Shcherbakova, in:, Proceedings of 1st International Electronic Conference on Microbiology, MDPI, 2020.
LibreCat: https://research-explorer.ista.ac.at/record/15071
DOI: 10.3390/ecm2020-07116

Micro-evolution of three Streptococcus species: Selection, antigenic variation, and horizontal gene inflow
P.V. Shelyakin, O. Bochkareva, A.A. Karan, M.S. Gelfand, BMC Evolutionary Biology 19 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/8263
DOI: 10.1186/s12862-019-1403-6

Additional file 11 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O. Sigalova, A. Chaplin, O. Bochkareva, P. Shelyakin, V. Filaretov, E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9731
DOI: 10.6084/m9.figshare.9808772.v1

Additional file 10 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9783
DOI: 10.6084/m9.figshare.9808760.v1

Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9897
DOI: 10.6084/m9.figshare.9808850.v1

Additional file 15 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9890
DOI: 10.6084/m9.figshare.9808802.v1

Additional file 16 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9892
DOI: 10.6084/m9.figshare.9808814.v1

Additional file 17 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9893
DOI: 10.6084/m9.figshare.9808820.v1

Additional file 18 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9894
DOI: 10.6084/m9.figshare.9808826.v1

Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9895
DOI: 10.6084/m9.figshare.9808835.v1

Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9896
DOI: 10.6084/m9.figshare.9808841.v1

Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, BMC Genomics 20 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/6898
DOI: 10.1186/s12864-019-6059-5
WoS: 000485256100001

Additional file 21 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9898
DOI: 10.6084/m9.figshare.9808859.v1

Additional file 9 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9901
DOI: 10.6084/m9.figshare.9808907.v1

Additional file 2 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9899
DOI: 10.6084/m9.figshare.9808865.v1

Additional file 5 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction
O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9900
DOI: 10.6084/m9.figshare.9808886.v1

Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp.
O. Bochkareva, E.V. Moroz, I.I. Davydov, M.S. Gelfand, BMC Genomics 19 (2018).
LibreCat: https://research-explorer.ista.ac.at/record/8262
DOI: 10.1186/s12864-018-5245-1

Genome rearrangements and phylogeny reconstruction in Yersinia pestis
O. Bochkareva, N.O. Dranenko, E.S. Ocheredko, G.M. Kanevsky, Y.N. Lozinsky, V.A. Khalaycheva, I.I. Artamonova, M.S. Gelfand, PeerJ 6 (2018).
LibreCat: https://research-explorer.ista.ac.at/record/8265
DOI: 10.7717/peerj.4545
PMID: 29607260