Research

Our lab develops and applies computational methods to discover novel biological phenomena. Our work has applications across a number of fields from molecular and microbiology to human health and disease. Below are our lab’s publications, annotated by research topic. For a potentially more up-to-date list, please see Google Scholar

2022

Alessia Roma, Matthew Tcheng, Nawaz Ahmed, Sarah Walker, Preethi Jayanth, Mark D. Minden, Kristin Hope, Praveen P. Nekkar Rao, Jessica Luc, Andrew C. Doxey, Julie A. Reisz, Rachel Culp-Hill, Angelo D'Alessandro, Paul A. Spagnuolo
Molecular Cancer Research  ·  22 Aug 2022
Xin Wei, Travis Wentz, Briallen Lobb, Michael J Mansfield, William Zhen, Huagang Tan, Zijing Wu, Sabine Pellett, Min Dong, Andrew C Doxey
Cold Spring Harbor Laboratory  ·  18 Aug 2022
Joseph F.A. Varga, Sascha R. Brunner, Grant Cheng, Daniel Min, Marc G. Aucoin, Andrew Doxey, Brian Dixon
Developmental & Comparative Immunology  ·  01 Aug 2022
Harold P Hodgins, Pengsheng Chen, Briallen Lobb, Benjamin JM Tremblay, Michael J Mansfield, Victoria CY Lee, Pyung-Gang Lee, Jeffrey Coffin, Xin Wei, Ana T Duggan, Alexis E Dolphin, Gabriel Renaud, Min Dong, Andrew C Doxey
Cold Spring Harbor Laboratory  ·  30 Jun 2022
Daniel Richard, Pushpanathan Muthuirulan, Jennifer Aguiar, Andrew C. Doxey, Arinjay Banerjee, Karen Mossman, Jeremy Hirota, Terence D. Capellini
iScience  ·  01 Jun 2022
Seiji N. Sugiman-Marangos, Shivneet K. Gill, Michael J. Mansfield, Kathleen E. Orrell, Andrew C. Doxey, Roman A. Melnyk
Communications Biology  ·  19 Apr 2022
Patricia A Bauman, Andrew C Doxey, Ivano Eberini, Emir Islamovic, Florence Jungo, Colton Kessenich, John Kough, Mansi Krishan, Luca Palazzolo, Laura Privalle, Chester E Rodriguez, Karla J F Satchell, Andre Silvanovich, Lucilia Pereira Mouriès
Regulatory toxicology and pharmacology : RTP  ·  24 Feb 2022
Travis G. Wentz, Benjamin J. M. Tremblay, Marite Bradshaw, Andrew C. Doxey, Shashi K. Sharma, John-Demian Sauer, Sabine Pellett
Frontiers in Microbiology  ·  09 Feb 2022

2021

Yechan Kim, Vincent Hou, Ryan D. Huff, Jennifer A. Aguiar, Spencer Revill, Nicholas Tiessen, Quynh Cao, Matthew S. Miller, Mark D. Inman, Kjetil Ask, Andrew C. Doxey, Jeremy A. Hirota
Respiratory Research  ·  19 Oct 2021
Briallen Lobb, Benjamin Jean-Marie Tremblay, Gabriel Moreno-Hagelsieb, Andrew C Doxey
BMC genomics  ·  14 Sep 2021
Arinjay Banerjee, Nader El-Sayes, Patrick Budylowski, Rajesh Abraham Jacob, Daniel Richard, Hassaan Maan, Jennifer A Aguiar, Wael L Demian, Kaushal Baid, Michael R D'Agostino, Jann Catherine Ang, Tetyana Murdza, Benjamin J-M Tremblay, Sam Afkhami, Mehran Karimzadeh, Aaron T Irving, Lily Yip, Mario Ostrowski, Jeremy A Hirota, Robert Kozak, Terence D Capellini, Matthew S Miller, Bo Wang, Samira Mubareka, Allison J McGeer, Andrew G McArthur, Andrew C Doxey, Karen Mossman
iScience  ·  26 Apr 2021
Sophie M Poznanski, Kanwaldeep Singh, Tyrah M Ritchie, Jennifer A Aguiar, Isabella Y Fan, Ana L Portillo, Eduardo A Rojas, Fatemeh Vahedi, Abdullah El-Sayes, Sansi Xing, Martin Butcher, Yu Lu, Andrew C Doxey, Jonathan D Schertzer, Hal W Hirte, Ali A Ashkar
Cell metabolism  ·  13 Apr 2021
Daniel Min, Andrew C Doxey, Joshua D Neufeld
GigaScience  ·  03 Feb 2021
Heather Ikert, Michael D J Lynch, Andrew C Doxey, John P Giesy, Mark R Servos, Barbara A Katzenback, Paul M Craig
Frontiers in physiology  ·  13 Jan 2021
Benjamin J-M Tremblay, Briallen Lobb, Andrew C Doxey
Bioinformatics (Oxford, England)  ·  08 Jan 2021

2020

Michael J Mansfield, Benjamin J-M Tremblay, Ji Zeng, Xin Wei, Harold Hodgins, Jay Worley, Lynn Bry, Min Dong, Andrew C Doxey
PLoS pathogens  ·  28 Dec 2020
Matthew F Fantauzzi, Jennifer A Aguiar, Benjamin J-M Tremblay, Michael J Mansfield, Toyoshi Yanagihara, Abiram Chandiramohan, Spencer Revill, Min Hyung Ryu, Chris Carlsten, Kjetil Ask, Martin Stämpfli, Andrew C Doxey, Jeremy A Hirota
ERJ open research  ·  14 Dec 2020
Arinjay Banerjee, Andrew C Doxey, Karen Mossman, Aaron T Irving
Trends in ecology & evolution  ·  13 Dec 2020
Abiram Chandiramohan, Mohammedhossein Dabaghi, Jennifer A. Aguiar, Nicholas Tiessen, Mary Stewart, Quynh T. Cao, Jenny P. Nguyen, Nima Makhdami, Gerard Cox, Andrew C. Doxey, Jeremy A. Hirota
ERJ Open Research  ·  10 Dec 2020
Ulrich Eckhard, Constantin Blöchl, Benjamin G L Jenkins, Michael J Mansfield, Christian G Huber, Andrew C Doxey, Hans Brandstetter
Scientific reports  ·  04 Nov 2020
Quynh T Cao, Jennifer A Aguiar, Benjamin J-M Tremblay, Nadin Abbas, Nicholas Tiessen, Spencer Revill, Nima Makhdami, Anmar Ayoub, Gerard Cox, Kjetil Ask, Andrew C Doxey, Jeremy A Hirota
Frontiers in cellular and infection microbiology  ·  16 Sep 2020
Sura Ali, Benjamin Jenkins, Jiujun Cheng, Briallen Lobb, Xin Wei, Suhelen Egan, Trevor C Charles, Brendan J McConkey, John Austin, Andrew C Doxey
Molecular microbiology  ·  15 Sep 2020
Arinjay Banerjee, Andrew C Doxey, Benjamin J-M Tremblay, Michael J Mansfield, Sonu Subudhi, Jeremy A Hirota, Matthew S Miller, Andrew G McArthur, Samira Mubareka, Karen Mossman
The Journal of general virology  ·  09 Sep 2020
Jennifer A. Aguiar, Benjamin J-M. Tremblay, Michael J. Mansfield, Owen Woody, Briallen Lobb, Arinjay Banerjee, Abiram Chandiramohan, Nicholas Tiessen, Quynh Cao, Anna Dvorkin-Gheva, Spencer Revill, Matthew S. Miller, Christopher Carlsten, Louise Organ, Chitra Joseph, Alison John, Paul Hanson, Richard C. Austin, Bruce M. McManus, Gisli Jenkins, Karen Mossman, Kjetil Ask, Andrew C. Doxey, Jeremy A. Hirota
European Respiratory Journal  ·  16 Jul 2020
Briallen Lobb, Rhiannon Hodgson, Michael D J Lynch, Michael J Mansfield, Jiujun Cheng, Trevor C Charles, Josh D Neufeld, Paul M Craig, Andrew C Doxey
mSystems  ·  28 Apr 2020
Emilie Spasov, Jackson M Tsuji, Laura A Hug, Andrew C Doxey, Laura A Sauder, Wayne J Parker, Josh D Neufeld
The ISME journal  ·  24 Apr 2020
Luca Bano, Matthias Kiel, Gabriele Sales, Andrew C Doxey, Michael J Mansfield, Haleluya T Wami, Marco Schiavone, Ornella Rossetto, Marco Pirazzini, Ulrich Dobrindt, Cesare Montecucco
Microbiology resource announcements  ·  16 Apr 2020
Briallen Lobb, Benjamin Jean-Marie Tremblay, Gabriel Moreno-Hagelsieb, Andrew C Doxey
Microbial genomics  ·  01 Mar 2020
Ryan D Huff, Jennifer A Aguiar, Wayne Tse, Martin R Stämpfli, Brendan J McConkey, Andrew C Doxey, Jeremy A Hirota
ERJ open research  ·  20 Jan 2020

2019

Lee H Bergstrand, Josh D Neufeld, Andrew C Doxey
Bioinformatics (Oxford, England)  ·  01 Dec 2019
Maryam Ghasemi, Benjamin Jenkins, Andrew C Doxey, Sivabal Sivaloganathan
Journal of theoretical biology  ·  16 Oct 2019
Jennifer A Aguiar, Ryan D Huff, Wayne Tse, Martin R Stämpfli, Brendan J McConkey, Andrew C Doxey, Jeremy A Hirota
Physiological reports  ·  01 Oct 2019
Xinda Lu, Katherine R Heal, Anitra E Ingalls, Andrew C Doxey, Josh D Neufeld
The ISME journal  ·  06 Sep 2019
Andrew C Doxey, Michael J Mansfield, Briallen Lobb
mSystems  ·  21 May 2019
Kerrin Mendler, Han Chen, Donovan H Parks, Briallen Lobb, Laura A Hug, Andrew C Doxey
Nucleic acids research  ·  21 May 2019
Michael James Mansfield, Travis Gwynn Wentz, Sicai Zhang, Elliot Jeon Lee, Min Dong, Shashi Kant Sharma, Andrew Charles Doxey
Scientific reports  ·  07 Feb 2019
Jennifer A Aguiar, Andrea Tamminga, Briallen Lobb, Ryan D Huff, Jenny P Nguyen, Yechan Kim, Anna Dvorkin-Gheva, Martin R Stampfli, Andrew C Doxey, Jeremy A Hirota
Scientific reports  ·  17 Jan 2019
Peter Brown, , Yaoqi Zhou
Database : the journal of biological databases and curation  ·  01 Jan 2019

2018

Briallen Lobb, Anthony A Adegoke, Kesen Ma, Andrew C Doxey, Olayinka A Aiyegoro
Microbiology resource announcements  ·  25 Oct 2018
Michael J Mansfield, Seiji N Sugiman-Marangos, Roman A Melnyk, Andrew C Doxey
FEBS letters  ·  16 Aug 2018
Mobolaji F Adegboye, Briallen Lobb, Olubukola O Babalola, Andrew C Doxey, Kesen Ma
Genome announcements  ·  28 Jun 2018
Michael J Mansfield, Andrew C Doxey
Pathogens and disease  ·  01 Jun 2018
Andrew C Doxey, Michael J Mansfield, Cesare Montecucco
Toxicon : official journal of the International Society on Toxinology  ·  10 Feb 2018
Sicai Zhang, Francois Lebreton, Michael J Mansfield, Shin-Ichiro Miyashita, Jie Zhang, Julia A Schwartzman, Liang Tao, Geoffrey Masuyer, Markel Martínez-Carranza, Pål Stenmark, Michael S Gilmore, Andrew C Doxey, Min Dong
Cell host & microbe  ·  27 Jan 2018
Deepak Kumaresan, Jason Stephenson, Andrew C Doxey, Hina Bandukwala, Elliot Brooks, Alexandra Hillebrand-Voiculescu, Andrew S Whiteley, J Colin Murrell
Microbiome  ·  02 Jan 2018

2017

Michael Guo, Zun Liu, Jessie Willen, Cameron P Shaw, Daniel Richard, Evelyn Jagoda, Andrew C Doxey, Joel Hirschhorn, Terence D Capellini
eLife  ·  05 Dec 2017
Christopher Kuc, Daniel J Richard, Samantha Johnson, Leslie Bragg, Mark R Servos, Andrew C Doxey, Paul M Craig
Scientific reports  ·  04 Dec 2017
Ulrich Eckhard, Hina Bandukwala, Michael J Mansfield, Giada Marino, Jiujun Cheng, Iain Wallace, Todd Holyoak, Trevor C Charles, John Austin, Christopher M Overall, Andrew C Doxey
Nature communications  ·  12 Sep 2017
Sarah-Grace Rota, Alessia Roma, Iulia Dude, Christina Ma, Robert Stevens, Janet MacEachern, Joanna Graczyk, Shaundrei Mabriel G Espiritu, Praveen N Rao, Mark D Minden, Elena Kreinin, David A Hess, Andrew C Doxey, Paul A Spagnuolo
Molecular cancer therapeutics  ·  23 Aug 2017
Ashley A Ross, Andrew C Doxey, Josh D Neufeld
mSystems  ·  20 Jul 2017
Terence D Capellini, Hao Chen, Jiaxue Cao, Andrew C Doxey, Ata M Kiapour, Michael Schoor, David M Kingsley
Nature genetics  ·  03 Jul 2017
Jeremy Adams, Michael J Mansfield, Daniel J Richard, Andrew C Doxey
Bioinformatics (Oxford, England)  ·  01 May 2017
Jiujun Cheng, Tatyana Romantsov, Katja Engel, Andrew C Doxey, David R Rose, Josh D Neufeld, Trevor C Charles
PloS one  ·  08 Mar 2017
Sara Coyotzi, Andrew C Doxey, Ian D Clark, David R Lapen, Philippe Van Cappellen, Josh D Neufeld
Environmental microbiology  ·  01 Feb 2017

2016

Eleanor Jameson, Andrew C Doxey, Ruth Airs, Kevin J Purdy, J Colin Murrell, Yin Chen
Microbial genomics  ·  20 Sep 2016
Briallen Lobb, Andrew C Doxey
Current opinion in structural biology  ·  10 Jun 2016

2015

Pavel Petrenko, Briallen Lobb, Daniel A Kurtz, Josh D Neufeld, Andrew C Doxey
BMC biology  ·  05 Nov 2015
Briallen Lobb, Daniel A Kurtz, Gabriel Moreno-Hagelsieb, Andrew C Doxey
Frontiers in genetics  ·  21 Jul 2015

2014

Michael J Mansfield, Jeremy B Adams, Andrew C Doxey
FEBS letters  ·  23 Dec 2014
Pavel Petrenko, Andrew C Doxey
Bioinformatics (Oxford, England)  ·  17 Oct 2014
Andrew C Doxey, Daniel A Kurtz, Michael D J Lynch, Laura A Sauder, Josh D Neufeld
The ISME journal  ·  15 Aug 2014

2013

Harendra Guturu, Andrew C Doxey, Aaron M Wenger, Gill Bejerano
Philosophical transactions of the Royal Society of London. Series B, Biological sciences  ·  11 Nov 2013
Andrew C Doxey, Brendan J McConkey
Virulence  ·  28 May 2013

2012

Angelika Böttger, Andrew C Doxey, Michael W Hess, Kristian Pfaller, Willi Salvenmoser, Rainer Deutzmann, Andreas Geissner, Barbara Pauly, Johannes Altstätter, Sandra Münder, Astrid Heim, Hans-Joachim Gabius, Brendan J McConkey, Charles N David
PloS one  ·  27 Dec 2012

2011

Aron Broom, Andrew C Doxey, Yuri D Lobsanov, Lisa G Berthin, David R Rose, P Lynne Howell, Brendan J McConkey, Elizabeth M Meiering
Structure (London, England : 1993)  ·  15 Dec 2011
Sanghyun Lee, Andrew C Doxey, Brendan J McConkey, Barbara A Moffatt
Molecular plant  ·  05 Oct 2011

2010

Andrew C Doxey, Zhenyu Cheng, Barbara A Moffatt, Brendan J McConkey
BMC structural biology  ·  03 Aug 2010

2008

Andrew C Doxey, Michael D J Lynch, Kirsten M Müller, Elizabeth M Meiering, Brendan J McConkey
BMC evolutionary biology  ·  14 Nov 2008
Owen Z Woody, Andrew C Doxey, Brendan J McConkey
Evolutionary bioinformatics online  ·  24 Apr 2008

2007

Andrew C Doxey, Mahmoud W F Yaish, Barbara A Moffatt, Marilyn Griffith, Brendan J McConkey
Molecular biology and evolution  ·  01 Feb 2007

2006

Andrew C Doxey, Mahmoud W Yaish, Marilyn Griffith, Brendan J McConkey
Nature biotechnology  ·  02 Jul 2006
Mahmoud W F Yaish, Andrew C Doxey, Brendan J McConkey, Barbara A Moffatt, Marilyn Griffith
Plant physiology  ·  30 Jun 2006