Our Publications

2024

A smart sensor for monitoring antimicrobial interventions in wound infections
A smart sensor for monitoring antimicrobial interventions in wound infections
Erin Magee, Dilidaer Yusufu, Cormac J. Rice, Timofey Skvortsov, Andrew Mills, Brendan F. Gilmore
Sensors and Actuators B: Chemical  ·  01 Apr 2024  ·  doi:10.1016/j.snb.2023.135179
A novel bioinformatic method for the identification of antimicrobial peptides in metagenomes
A novel bioinformatic method for the identification of antimicrobial peptides in metagenomes
Julianne Megaw, Timofey Skvortsov, Giulia Gori, Aliyu I Dabai, Brendan F Gilmore, Christopher C R Allen
Journal of Applied Microbiology  ·  21 Feb 2024  ·  doi:10.1093/jambio/lxae045
Enzyme Screening and Engineering for N- and O-Demethylation: Key Steps in the Synthesis of Buprenorphine
Enzyme Screening and Engineering for N- and O-Demethylation: Key Steps in the Synthesis of Buprenorphine
Alexandra T. P. Carvalho, Daniel F. A. R. Dourado, Jenny Spratt, Jill M. Caswell, Timofey Skvortsov, Derek J. Quinn, John S. Carey, Thomas S. Moody
Organic Process Research & Development  ·  16 Feb 2024  ·  doi:10.1021/acs.oprd.3c00417

2023

Cold atmospheric pressure plasma-antibiotic synergy in Pseudomonas aeruginosa biofilms is mediated via oxidative stress response
Cold atmospheric pressure plasma-antibiotic synergy in Pseudomonas aeruginosa biofilms is mediated via oxidative stress response
Jordanne-Amee Maybin, Thomas P. Thompson, Padrig B. Flynn, Timofey Skvortsov, Noreen J. Hickok, Theresa A. Freeman, Brendan F. Gilmore
Biofilm  ·  01 Dec 2023  ·  doi:10.1016/j.bioflm.2023.100122
Identification and Characterisation of Two Functional Antibiotic MATE Efflux pumps in the Halophilic Archaeon Halorubrum saccharovorum CSM52
Identification and Characterisation of Two Functional Antibiotic MATE Efflux pumps in the Halophilic Archaeon Halorubrum saccharovorum CSM52
Brendan Gilmore, Asma Fakhoury, Thomas Thompson, Khondaker Rahman, Julianne Megaw, Matthew McAteer, Timofey Skvortsov, Stephen Kelly
Research Square Platform LLC  ·  20 Nov 2023  ·  doi:10.21203/rs.3.rs-3584324/v1
DePolymerase Predictor (DePP): a machine learning tool for the targeted identification of phage depolymerases
DePolymerase Predictor (DePP): a machine learning tool for the targeted identification of phage depolymerases
Damian J. Magill, Timofey A. Skvortsov
BMC Bioinformatics  ·  19 May 2023  ·  doi:10.1186/s12859-023-05341-w
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SARS-CoV-2 introductions to the island of Ireland
SARS-CoV-2 introductions to the island of Ireland
Alan M. Rice, Evan P. Troendle, Stephen Bridgett, Behnam Firoozi Nejad, Jennifer M. McKinley, Declan T. Bradley, Derek Fairley, Connor G. G. Bamford, Timofey Skvortsov, David A. Simpson
Cold Spring Harbor Laboratory  ·  11 May 2023  ·  doi:10.1101/2023.05.11.23289783
Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes
Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes
S. Cotton, M.P. McHugh, R. Dewar, J.G. Haas, K. Templeton, …, Amy Gaskin, Thanh Le-Viet, James Bonfield, Jennifier Liddle, Andrew Whitwham
Journal of Hospital Infection  ·  01 May 2023  ·  doi:10.1016/j.jhin.2023.02.010
Application of a Machine Learning Approach Towards the Targeted Identification of Phage Depolymerases
Application of a Machine Learning Approach Towards the Targeted Identification of Phage Depolymerases
Damian J. Magill, Timofey A. Skvortsov
Cold Spring Harbor Laboratory  ·  28 Feb 2023  ·  doi:10.1101/2023.02.28.530424
High number of SARS-CoV-2 persistent infections uncovered through genetic analysis of samples from a large community-based surveillance study
High number of SARS-CoV-2 persistent infections uncovered through genetic analysis of samples from a large community-based surveillance study
Mahan Ghafari, Matthew Hall, Tanya Golubchik, Daniel Ayoubkhani, Thomas House, …, Jeff Barrett, Christophe Fraser, David Bonsall, Ann Sarah Walker, Katrina Lythgoe
Cold Spring Harbor Laboratory  ·  30 Jan 2023  ·  doi:10.1101/2023.01.29.23285160
Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1
Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1
Joseph L.-H. Tsui, Ben Lambert, Sumali Bajaj, John T. McCrone, Rhys P.D. Inward, …, Jayna Raghwani, Philippe Lemey, Andrew Rambaut, Oliver G. Pybus, Moritz U.G. Kraemer
Cold Spring Harbor Laboratory  ·  04 Jan 2023  ·  doi:10.1101/2023.01.02.23284109
Viruses and Other Acellular Infectious Agents: Characteristics and Control
Viruses and Other Acellular Infectious Agents: Characteristics and Control
Timofey Skvortsov, Jean-Yves Maillard
Hugo and Russell's Pharmaceutical Microbiology  ·  01 Jan 2023  ·  isbn:9781119434498
Smart Sensor for Monitoring Antimicrobial Interventions in Wound Infections
Smart Sensor for Monitoring Antimicrobial Interventions in Wound Infections
Erin Magee, Dilidaer Yusufu, Cormac J. Rice, Timofey Skvortsov, Andrew Mills, Brendan F. Gilmore
Elsevier BV  ·  01 Jan 2023  ·  doi:10.2139/ssrn.4590639

2022

Viral burdens are associated with age and viral variant in a population-representative study of SARS-CoV-2 that accounts for time-since-infection related sampling bias
Viral burdens are associated with age and viral variant in a population-representative study of SARS-CoV-2 that accounts for time-since-infection related sampling bias
Helen R. Fryer, Tanya Golubchik, Matthew Hall, Christophe Fraser, Robert Hinch, …, Adnan Mohammed Tariq, Rui Nunes Dos Santos, Zack Richards, David Bonsall, Katrina A. Lythgoe
Cold Spring Harbor Laboratory  ·  02 Dec 2022  ·  doi:10.1101/2022.12.02.518847
Phylogenetic systematics of Butyrivibrio and Pseudobutyrivibrio pure culture and metagenomically assembled genomes suggest existence of 59 genera and 75 species, alongside possession of open pangenomes with an abundance of carbohydrate-active enzyme family isoforms
Phylogenetic systematics of Butyrivibrio and Pseudobutyrivibrio pure culture and metagenomically assembled genomes suggest existence of 59 genera and 75 species, alongside possession of open pangenomes with an abundance of carbohydrate-active enzyme family isoforms
Sara E. Pidcock, Timofey Skvortsov, Stephen J. Courtney, Christopher J. Creevey, Sharon A. Huws
Research Square Platform LLC  ·  23 Nov 2022  ·  doi:10.21203/rs.3.rs-2289353/v1
Publisher Correction: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway
Publisher Correction: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway
Brian J. Willett, Joe Grove, Oscar A. MacLean, Craig Wilkie, Giuditta De Lorenzo, …, John Haughney, David L. Robertson, Massimo Palmarini, Surajit Ray, Emma C. Thomson
Nature Microbiology  ·  16 Sep 2022  ·  doi:10.1038/s41564-022-01241-6
SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2
SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2
Oliver Eales, Andrew J. Page, Leonardo de Oliveira Martins, Haowei Wang, Barbara Bodinier, …, Ara Darzi, Steven Riley, Marc Chadeau-Hyam, Christl A. Donnelly, Paul Elliott
BMC Infectious Diseases  ·  27 Jul 2022  ·  doi:10.1186/s12879-022-07628-4
SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway
SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway
Brian J. Willett, Joe Grove, Oscar A. MacLean, Craig Wilkie, Giuditta De Lorenzo, …, John Haughney, David L. Robertson, Massimo Palmarini, Surajit Ray, Emma C. Thomson
Nature Microbiology  ·  07 Jul 2022  ·  doi:10.1038/s41564-022-01143-7
COVID-19 due to the B.1.617.2 (Delta) variant compared to B.1.1.7 (Alpha) variant of SARS-CoV-2: a prospective observational cohort study
COVID-19 due to the B.1.617.2 (Delta) variant compared to B.1.1.7 (Alpha) variant of SARS-CoV-2: a prospective observational cohort study
Kerstin Kläser, Erika Molteni, Mark Graham, Liane S. Canas, Marc F. Österdahl, …, Tim D. Spector, Claire J. Steves, Carole H. Sudre, Sebastien Ourselin, Emma L. Duncan
Scientific Reports  ·  28 Jun 2022  ·  doi:10.1038/s41598-022-14016-0
Mini-XT, a miniaturized tagmentation-based protocol for efficient sequencing of SARS-CoV-2
Mini-XT, a miniaturized tagmentation-based protocol for efficient sequencing of SARS-CoV-2
Marc Fuchs, Clara Radulescu, Miao Tang, Arun Mahesh, Deborah Lavin, …, Fiona Rogan, Julia Miskelly, Stephen Bridgett, Derek Fairley, David A. Simpson
Journal of Translational Medicine  ·  03 Mar 2022  ·  doi:10.1186/s12967-022-03307-9
Recurrent SARS-CoV-2 Mutations in Immunodeficient Patients
Recurrent SARS-CoV-2 Mutations in Immunodeficient Patients
Sam AJ Wilkinson, Alex Richter, Anna Casey, Husam Osman, Jeremy D Mirza, …, Sam Nicholls, Beatrix Kele, Kathryn Harris, Thomas P Peacock, Nicholas J Loman
Cold Spring Harbor Laboratory  ·  02 Mar 2022  ·  doi:10.1101/2022.03.02.22271697
Spatial Growth Rate of Emerging SARS-CoV-2 Lineages in England, September 2020–December 2021
Spatial Growth Rate of Emerging SARS-CoV-2 Lineages in England, September 2020–December 2021
M.R. Smallman-Raynor, A.D. Cliff
Cold Spring Harbor Laboratory  ·  02 Feb 2022  ·  doi:10.1101/2022.02.02.22270110
Lineage replacement and evolution captured by three years of the United Kingdom Covid Infection Survey
Lineage replacement and evolution captured by three years of the United Kingdom Covid Infection Survey
Katrina Lythgoe, Tanya Golubchik, Matthew Hall, Thomas House, Roberto Cahuantzi, …, Christophe Fraser, Ian Diamond, Jeff Barrett, Ann Sarah Walker, David Bonsall
Cold Spring Harbor Laboratory  ·  06 Jan 2022  ·  doi:10.1101/2022.01.05.21268323
The hyper-transmissible SARS-CoV-2 Omicron variant exhibits significant antigenic change, vaccine escape and a switch in cell entry mechanism
The hyper-transmissible SARS-CoV-2 Omicron variant exhibits significant antigenic change, vaccine escape and a switch in cell entry mechanism
Brian J. Willett, Joe Grove, Oscar A. MacLean, Craig Wilkie, Nicola Logan, …, John Haughney, David L. Robertson, Massimo Palmarini, Surajit Ray, Emma C. Thomson
Cold Spring Harbor Laboratory  ·  03 Jan 2022  ·  doi:10.1101/2022.01.03.21268111

2021

Context-specific emergence and growth of the SARS-CoV-2 Delta variant
Context-specific emergence and growth of the SARS-CoV-2 Delta variant
John T. McCrone, Verity Hill, Sumali Bajaj, Rosario Evans Pena, Ben C. Lambert, …, Nicholas J. Loman, Marc A. Suchard, Oliver G. Pybus, Andrew Rambaut, Moritz U.G. Kraemer
Cold Spring Harbor Laboratory  ·  21 Dec 2021  ·  doi:10.1101/2021.12.14.21267606
Genomics-informed outbreak investigations of SARS-CoV-2 using civet
Genomics-informed outbreak investigations of SARS-CoV-2 using civet
Áine O’Toole, Verity Hill, Ben Jackson, Rebecca Dewar, Nikita Sahadeo, …, Nick Loman, Ian Goodfellow, Christine V. F. Carrington, Kate Templeton, Andrew Rambaut
Cold Spring Harbor Laboratory  ·  14 Dec 2021  ·  doi:10.1101/2021.12.13.21267267
The impact of viral mutations on recognition by SARS-CoV-2 specific T cells
The impact of viral mutations on recognition by SARS-CoV-2 specific T cells
Thushan I. de Silva, Guihai Liu, Benjamin B. Lindsey, Danning Dong, Shona C. Moore, …, Adam Wolverson, Daniel G. Wootton, Andrew Workman, Bryan Yates, Peter Young
iScience  ·  01 Nov 2021  ·  doi:10.1016/j.isci.2021.103353
Phylogenetic systematics of Butyrivibrio and Pseudobutyrivibrio genomes illustrate vast taxonomic diversity, open genomes and an abundance of carbohydrate-active enzyme family isoforms
Phylogenetic systematics of Butyrivibrio and Pseudobutyrivibrio genomes illustrate vast taxonomic diversity, open genomes and an abundance of carbohydrate-active enzyme family isoforms
Sara E. Pidcock, Timofey Skvortsov, Fernanda G. Santos, Stephen J. Courtney, Karen Sui-Ting, Christopher J. Creevey, Sharon A. Huws
Microbial Genomics  ·  01 Nov 2021  ·  doi:10.1099/mgen.0.000638
Small RNA F6 Provides Mycobacterium smegmatis Entry into Dormancy
Small RNA F6 Provides Mycobacterium smegmatis Entry into Dormancy
Artem Grigorov, Oksana Bychenko, Elena G. Salina, Yulia Skvortsova, Arina Mazurova, Timofey Skvortsov, Arseny Kaprelyants, Tatyana Azhikina
International Journal of Molecular Sciences  ·  26 Oct 2021  ·  doi:10.3390/ijms222111536
Novel Phage-Derived Depolymerase with Activity against Proteus mirabilis Biofilms
Novel Phage-Derived Depolymerase with Activity against Proteus mirabilis Biofilms
Cormac J. Rice, Stephen A. Kelly, Seamus C. O’Brien, Erinn M. Melaugh, Jan C. B. Ganacias, Zheng Hua Chai, Brendan F. Gilmore, Timofey Skvortsov
Microorganisms  ·  19 Oct 2021  ·  doi:10.3390/microorganisms9102172
Genomic reconstruction of the SARS-CoV-2 epidemic in England
Genomic reconstruction of the SARS-CoV-2 epidemic in England
Harald S. Vöhringer, Theo Sanderson, Matthew Sinnott, Nicola De Maio, Thuy Nguyen, …, Dominic Kwiatkowski, Meera Chand, Inigo Martincorena, Jeffrey C. Barrett, Moritz Gerstung
Nature  ·  14 Oct 2021  ·  doi:10.1038/s41586-021-04069-y
Microbiology of a <scp>NaCl</scp> stalactite ‘salticle’ in Triassic halite
Microbiology of a NaCl stalactite ‘salticle’ in Triassic halite
Thomas P. Thompson, Stephen A. Kelly, Timofey Skvortsov, Gill Plunkett, Alastair Ruffell, John E. Hallsworth, Jason Hopps, Brendan F. Gilmore
Environmental Microbiology  ·  19 May 2021  ·  doi:10.1111/1462-2920.15524

2020

Engineering Peptides to Catalyze and Control Stabilization of Gas Hydrates: Learning From Nature
Engineering Peptides to Catalyze and Control Stabilization of Gas Hydrates: Learning From Nature
Mohammad Reza Ghaani, Christopher C. R. Allen, Timofey Skvortsov, Niall J. English
The Journal of Physical Chemistry Letters  ·  17 Jun 2020  ·  doi:10.1021/acs.jpclett.0c01224
Phylogenetic systematics of Butyrivibrio and Pseudobutyrivibrio genomes illustrate possession of open genomes rich in orthologous accessory genes with an abundance of carbohydrate-active enzyme isoforms
Phylogenetic systematics of Butyrivibrio and Pseudobutyrivibrio genomes illustrate possession of open genomes rich in orthologous accessory genes with an abundance of carbohydrate-active enzyme isoforms
Sharon Huws, Timofey Skvortsov, Fernanda Godoys Santos, Stephen Courtney, Karen Siu Ting, Chris Creevey
Research Square Platform LLC  ·  16 Jun 2020  ·  doi:10.21203/rs.3.rs-34780/v1
Rapid <i>Mycobacterium tuberculosis</i> spoligotyping from uncorrected long reads using Galru
Rapid Mycobacterium tuberculosis spoligotyping from uncorrected long reads using Galru
Andrew J. Page, Nabil-Fareed Alikhan, Michael Strinden, Thanh Le Viet, Timofey Skvortsov
Cold Spring Harbor Laboratory  ·  01 Jun 2020  ·  doi:10.1101/2020.05.31.126490

2019

Microbial Stabilization and Kinetic Enhancement of Marine Methane Hydrates
Microbial Stabilization and Kinetic Enhancement of Marine Methane Hydrates
Mohammad Reza Ghaani, Christopher C. R. Allen, Jonathan M. Young, Prithwish K. Nandi, Shamsudeen U. Dandare, Timofey Skvortsov, Niall J. English
Geomicrobiology Journal  ·  26 Nov 2019  ·  doi:10.1080/01490451.2019.1695982
Profiling the microbial community of a Triassic halite deposit in Northern Ireland: an environment with significant potential for biodiscovery
Profiling the microbial community of a Triassic halite deposit in Northern Ireland: an environment with significant potential for biodiscovery
Julianne Megaw, Stephen A Kelly, Thomas P Thompson, Timofey Skvortsov, Brendan F Gilmore
FEMS Microbiology Letters  ·  01 Nov 2019  ·  doi:10.1093/femsle/fnz242
Characterisation of a solvent-tolerant haloarchaeal (R)-selective transaminase isolated from a Triassic period salt mine
Characterisation of a solvent-tolerant haloarchaeal (R)-selective transaminase isolated from a Triassic period salt mine
Stephen A. Kelly, Damian J. Magill, Julianne Megaw, Timofey Skvortsov, Thorsten Allers, John W. McGrath, Christopher C. R. Allen, Thomas S. Moody, Brendan F. Gilmore
Applied Microbiology and Biotechnology  ·  23 May 2019  ·  doi:10.1007/s00253-019-09806-y
Genomic hypervariability of phage Andromeda is unique among known dsDNA viruses
Genomic hypervariability of phage Andromeda is unique among known dsDNA viruses
Damian J. Magill, Leonid A. Kulakov, Timofey A. Skvortsov
Cold Spring Harbor Laboratory  ·  25 Apr 2019  ·  doi:10.1101/619015
Effect of soil horizon stratigraphy on the microbial ecology of alpine paleosols
Effect of soil horizon stratigraphy on the microbial ecology of alpine paleosols
Jonathan M. Young, Timofey Skvortsov, Brian P. Kelleher, William C. Mahaney, Peeter Somelar, Christopher C.R. Allen
Science of The Total Environment  ·  01 Mar 2019  ·  doi:10.1016/j.scitotenv.2018.11.442

2018

Characterization of a novel ω-transaminase from a Triassic salt mine metagenome
Characterization of a novel ω-transaminase from a Triassic salt mine metagenome
Stephen A. Kelly, Timofey Skvortsov, Damian Magill, Derek J. Quinn, John W. McGrath, Christopher C.R. Allen, Thomas S. Moody, Brendan F. Gilmore
Biochemical and Biophysical Research Communications  ·  01 Sep 2018  ·  doi:10.1016/j.bbrc.2018.08.073
Draft Genome Sequences of <i>Pseudomonas putida</i> UV4 and UV4/95, Toluene Dioxygenase-Expressing Producers of <i>cis</i> -1,2-Dihydrodiols
Draft Genome Sequences of Pseudomonas putida UV4 and UV4/95, Toluene Dioxygenase-Expressing Producers of cis -1,2-Dihydrodiols
Timofey Skvortsov, Patrick Hoering, Ksenia Arkhipova, Roger C. Whitehead, Derek R. Boyd, Christopher C. R. Allen
Genome Announcements  ·  04 Jan 2018  ·  doi:10.1128/genomeA.01419-17
Draft Genome Sequence of the Predatory Marine Bacterium <i>Halobacteriovorax</i> sp. Strain JY17
Draft Genome Sequence of the Predatory Marine Bacterium Halobacteriovorax sp. Strain JY17
Jonathan M. Young, Timofey Skvortsov, Ksenia Arkhipova, Christopher C. R. Allen
Genome Announcements  ·  04 Jan 2018  ·  doi:10.1128/genomeA.01416-17
Draft Genome Sequence of <i>Rhodococcus</i> sp. Strain NCIMB 12038, a Naphthalene-Degrading Bacterium
Draft Genome Sequence of Rhodococcus sp. Strain NCIMB 12038, a Naphthalene-Degrading Bacterium
Shamsudeen U. Dandare, Timofey Skvortsov, Ksenia Arkhipova, Christopher C. R. Allen
Genome Announcements  ·  04 Jan 2018  ·  doi:10.1128/genomeA.01420-17
Spatial requirement for PAMO for transformation of non-native linear substrates
Spatial requirement for PAMO for transformation of non-native linear substrates
Alexandra T. P. Carvalho, Daniel F. A. R. Dourado, Timofey Skvortsov, Miguel de Abreu, Lyndsey J. Ferguson, Derek J. Quinn, Thomas S. Moody, Meilan Huang
Physical Chemistry Chemical Physics  ·  01 Jan 2018  ·  doi:10.1039/C7CP07172H

2017

Temporal dynamics of uncultured viruses: a new dimension in viral diversity
Temporal dynamics of uncultured viruses: a new dimension in viral diversity
Ksenia Arkhipova, Timofey Skvortsov, John P Quinn, John W McGrath, Christopher C R Allen, Bas E Dutilh, Yvonne McElarney, Leonid A Kulakov
The ISME Journal  ·  13 Oct 2017  ·  doi:10.1038/ismej.2017.157
Catalytic mechanism of phenylacetone monooxygenases for non-native linear substrates
Catalytic mechanism of phenylacetone monooxygenases for non-native linear substrates
Alexandra T. P. Carvalho, Daniel F. A. R. Dourado, Timofey Skvortsov, Miguel de Abreu, Lyndsey J. Ferguson, Derek J. Quinn, Thomas S. Moody, Meilan Huang
Phys. Chem. Chem. Phys.  ·  01 Jan 2017  ·  doi:10.1039/C7CP03640J

2016

Rational Design of a (S)-Selective-Transaminase for Asymmetric Synthesis of (1S)-1-(1,1′-biphenyl-2-yl)ethanamine
Rational Design of a (S)-Selective-Transaminase for Asymmetric Synthesis of (1S)-1-(1,1′-biphenyl-2-yl)ethanamine
Daniel F. A. R. Dourado, Stefan Pohle, Alexandra T. P. Carvalho, Dharmendra S. Dheeman, Jill M. Caswell, …, Derek J. Quinn, Christopher C. R. Allen, Leonid Kulakov, Meilan Huang, Thomas S. Moody
ACS Catalysis  ·  17 Oct 2016  ·  doi:10.1021/acscatal.6b02380
Metagenomic Characterisation of the Viral Community of Lough Neagh, the Largest Freshwater Lake in Ireland
Metagenomic Characterisation of the Viral Community of Lough Neagh, the Largest Freshwater Lake in Ireland
Timofey Skvortsov, Colin de Leeuwe, John P. Quinn, John W. McGrath, Christopher C. R. Allen, Yvonne McElarney, Catherine Watson, Ksenia Arkhipova, Rob Lavigne, Leonid A. Kulakov
PLOS ONE  ·  29 Feb 2016  ·  doi:10.1371/journal.pone.0150361

2015

Dormant non-culturable Mycobacterium tuberculosis retains stable low-abundant mRNA
Dormant non-culturable Mycobacterium tuberculosis retains stable low-abundant mRNA
Dmitriy V. Ignatov, Elena G. Salina, Mikhail V. Fursov, Timofey A. Skvortsov, Tatyana L. Azhikina, Arseny S. Kaprelyants
BMC Genomics  ·  16 Nov 2015  ·  doi:10.1186/s12864-015-2197-6

2014

Expression of small RNAs of Mycobacterium tuberculosis in murine models of tuberculosis infection
Expression of small RNAs of Mycobacterium tuberculosis in murine models of tuberculosis infection
D. V. Ignatov, O. Yu. Timoshina, N. N. Logunova, T. A. Skvortsov, T. L. Azhikina
Russian Journal of Bioorganic Chemistry  ·  01 Mar 2014  ·  doi:10.1134/s1068162014020058
Экспрессия малых РНК<i>Mycobacterium tuberculosis</i>в мышиных моделях туберкулезной инфекции
Экспрессия малых РНКMycobacterium tuberculosisв мышиных моделях туберкулезной инфекции
Д. В. Игнатов, О. Ю. Тимошина, Н. Н. Логунова, Т. А. Скворцов, Т. Л. Ажикина
Биоорганическая химия  ·  01 Jan 2014  ·  doi:10.7868/s0132342314020055
Differences in Brain Transcriptomes of Closely Related Baikal Coregonid Species
Differences in Brain Transcriptomes of Closely Related Baikal Coregonid Species
Oksana S. Bychenko, Lyubov V. Sukhanova, Tatyana L. Azhikina, Timofey A. Skvortsov, Tuyana V. Belomestnykh, Eugene D. Sverdlov
BioMed Research International  ·  01 Jan 2014  ·  doi:10.1155/2014/857329

2013

RNA-Seq Analysis of Mycobacterium avium Non-Coding Transcriptome
RNA-Seq Analysis of Mycobacterium avium Non-Coding Transcriptome
Dmitriy Ignatov, Sofia Malakho, Konstantin Majorov, Timofey Skvortsov, Alexander Apt, Tatyana Azhikina
PLoS ONE  ·  16 Sep 2013  ·  doi:10.1371/journal.pone.0074209
Mycobacterium tuberculosis transcriptome profiling in mice with genetically different susceptibility to tuberculosis
Mycobacterium tuberculosis transcriptome profiling in mice with genetically different susceptibility to tuberculosis
T A Skvortsov, D V Ignatov, K B Majorov, A S Apt, T L Azhikina
Acta Naturae  ·  01 Jan 2013  ·  pmc:PMC3695354

2012

Novel small RNAs from Mycobacterium avium
Novel small RNAs from Mycobacterium avium
D. V. Ignatov, L. G. Mefodieva, K. B. Majorov, T. A. Skvortsov, T. L. Azhikina
Russian Journal of Bioorganic Chemistry  ·  01 Jul 2012  ·  doi:10.1134/s1068162012040085
Adaptive changes in gene expression of Mycobacterium tuberculosis during the development of the infection
Adaptive changes in gene expression of Mycobacterium tuberculosis during the development of the infection
T. A. Skvortsov, T. L. Azhikina
Russian Journal of Bioorganic Chemistry  ·  01 Jul 2012  ·  doi:10.1134/s1068162012040139

2011

Heterogeneity and degree of TIMP4, GATA4, SOX18, and EGFL7 gene promoter methylation in non–small cell lung cancer and surrounding tissues
Heterogeneity and degree of TIMP4, GATA4, SOX18, and EGFL7 gene promoter methylation in non–small cell lung cancer and surrounding tissues
Tatyana Azhikina, Alena Kozlova, Timofey Skvortsov, Eugene Sverdlov
Cancer Genetics  ·  01 Sep 2011  ·  doi:10.1016/j.cancergen.2011.07.010

2010

A review of the transcriptome analysis of bacterial pathogens in vivo: Problems and solutions
A review of the transcriptome analysis of bacterial pathogens in vivo: Problems and solutions
T. A. Skvortsov, T. L. Azhikina
Russian Journal of Bioorganic Chemistry  ·  01 Sep 2010  ·  doi:10.1134/s106816201005002x
A new technique for obtaining whole pathogen transcriptomes from infected host tissues
A new technique for obtaining whole pathogen transcriptomes from infected host tissues
Tatyana L. Azhikina, Timofey A. Skvortsov, Tatyana V. Radaeva, Andrey V. Mardanov, Nikolay V. Ravin, Alexander S. Apt, Eugene D. Sverdlov
BioTechniques  ·  01 Feb 2010  ·  doi:10.2144/000113350
Adaptive changes in Mycobacterium avium gene expression profile following infection of genetically susceptible and resistant mice
Adaptive changes in Mycobacterium avium gene expression profile following infection of genetically susceptible and resistant mice
D V Ignatov, T A Skvortsov, K B Majorov, A S Apt, T L Azhikina
Acta Naturae  ·  01 Jan 2010  ·  pmid:22649654

2009

Genome similarity of Baikal omul and sig
Genome similarity of Baikal omul and sig
O. S. Bychenko, L. V. Sukhanova, S. S. Ukolova, T. A. Skvortsov, V. K. Potapov, T. L. Azhikina, E. D. Sverdlov
Russian Journal of Bioorganic Chemistry  ·  01 Jan 2009  ·  doi:10.1134/s1068162009010117