St Andrews Bioinformatics Unit

Publications

Publications listed below are in most recent publication order for all researchers within the St Andrews Bioinformatics community

100 (of 163 /dk/atira/pure/researchoutput/status/published available) for St Andrews Bioinformatics Unit (source: University of St Andrews PURE)
Please click title of any item for full details

Genotype-phenotype correlation in contactin-associated protein-like 2 (CNTNAP-2) developmental disorder Gianluca D'Onofrio, Andrea Accogli, Mariasavina Severino, Haluk Caliskan, Tomislav Kokotović, Antonela Blazekovic, Kristina Gotovac Jercic, Silvana Markovic, Tamara Zigman, Krnjak Goran, Nina Barišić, Vlasta Duranovic, Ana Ban, Fran Borovecki, Danijela Petković Ramadža, Ivo Barić, Walid Fazeli, Peter Herkenrath, Carla Marini, Roberta Vittorini, Vykuntaraju Gowda, Arjan Bouman, Clarissa Rocca, Issam Azmi Alkhawaja, Bibi Nazia Murtaza, Malik Mujaddad Ur Rehman, Chadi Al Alam, Gisele Nader, Maria Margherita Mancardi, Thea Giacomini, Siddharth Srivastava, Javeria Raza Alvi, Hoda Tomoum, Sara Matricardi, Michele Iacomino, Antonella Riva, Marcello Scala, Francesca Madia, Angela Pistorio, Vincenzo Salpietro, Carlo Minetti, Jean-Baptiste Rivière, Myriam Srour, Stephanie Efthymiou, Reza Maroofian, Henry Houlden, Sonja Vernes, Federico Zara, Pasquale Striano, Vanja Nagy
Human Genetics 2023
The rarer-sex effect Andy Gardner
Philosophical Transactions of the Royal Society B: Biological Sciences 2023 vol. 378
The role of multidimensional poverty in antibiotic misuse Dominique LaShari Green, Katherine Lisa Keenan, Kathryn Jean Fredricks, Sarah Insia Huque, Martha F Mushi, Catherine Kansiime, Benon Asiimwe, John Kiiru, Stephen Mshana, Stella Neema, Joseph R Mwanga, Mike Kesby, Andy Lynch, Hannah Worthington, Emmanuel Olawale Olamijuwon, Mary Abed Al Ahad, Annette Aduda, John Mwaniki Njeru, Blandina T Mmbaga, Joel Bazira, Alison Fiona Sandeman, John Stelling, Stephen Henry Gillespie, Gibson Kibiki, Wilber Sabiiti, Derek James Sloan, Matthew Holden, V Anne Smith, Arun Decano, Antonio Maldonado-Barragan, David Aanensen, Nyanda E Ntinginya, Alison Elliott,
The Lancet Global Health 2023 vol. 11 pp. e59-e68
Bacterial etiology of urinary tract infections in patients treated at Kenyan health facilities and their resistance towards commonly used antibiotics Susan Kiiru, John Maina, Japhet Katana, John Mwaniki, Benon B. Asiimwe, Stephen E. Mshana, Katherine Lisa Keenan, Stephen Henry Gillespie, John Stelling, Matthew Holden, HATUA Consortium, John Kiiru
PLoS ONE 2023 vol. 18
Characterisation of arabinogalactan endo β 1,4 galactanases from Globodera rostochiensis, Globodera pallida and Rotylenchulus reniformis Sophie Mantelin, Sebastian Eves-van den Akker, John Jones
Physiological and Molecular Plant Pathology 2023 vol. 123
Genomic investigations of unexplained acute hepatitis in children Sofia Morfopoulou, Sarah Buddle, Oscar Enrique Torres Montaguth, Laura Atkinson, José Afonso Guerra-Assunção, Mahdi Moradi Marjaneh, Riccardo Zenezini Chiozzi, Nathaniel Storey, Luis Campos, J. Ciaran Hutchinson, John R. Counsell, Gabriele Pollara, Sunando Roy, Cristina Venturini, Juan F. Antinao Diaz, Ala’a Siam, Luke J. Tappouni, Zeinab Asgarian, Joanne Ng, Killian S. Hanlon, Alexander Lennon, Andrew McArdle, Agata Czap, Joshua Rosenheim, Catarina Andrade, Glenn Anderson, Jack C. D. Lee, Rachel Williams, Charlotte A. Williams, Helena Tutill, Nadua Bayzid, Luz Marina Martin Bernal, Hannah Macpherson, Kylie-Ann Montgomery, Catherine Moore, Kate Templeton, Claire Neill, Matthew Holden, Rory Gunson, Samantha J. Shepherd, Priyen Shah, Samantha Cooray, Marie Voice, Michael Steele, Colin Fink, Thomas E. Whittaker, Giorgia Santilli, Paul Gissen, Benedikt B. Kaufer, Jana Reich, Judith Breuer
Nature 2023 vol. 617 pp. 564-592
Urogenital pathogens in urine samples of clinically diagnosed urinary tract infected patients in Tanzania Betrand Msemwa, Martha F. Mushi, Benson Kidenya, Bernard Okamo, Katherine Lisa Keenan, Wilber Sabiiti, Donald N. Miyaye, Eveline T. Konje, Vitus Silago, Mariam M. Mirambo, Joseph R. Mwanga, Stephen Henry Gillespie, Antonio Maldonado-Barragan, Alison Fiona Sandeman, Matthew Holden, Stephen E. Mshana
IJID Regions 2023 vol. 7 pp. 170-175
Allele distribution and phenotypic resistance to ciprofloxacin and gentamicin among extended spectrum β-lactamases producing Escherichia coli from urine, stool, animals and environments of patients with presumptive urinary tract infection in Tanzania Adam A. Mwakyoma, Benson R. Kidenya, Caroline A. Minja, Martha F. Mushi, Alison Fiona Sandeman, Wilber Sabiiti, Matthew Holden, Catholic heal
Frontiers in Antibiotics 2023 vol. 2
Antibiotic dispensing practices during COVID-19 and implications for antimicrobial resistance (AMR) Emmanuel Olawale Olamijuwon, Eveline Konje, Catherine Kansiime, Mike Kesby, Katherine Lisa Keenan, Stella Neema, Benon Asiimwe, Stephen Mshana, Martha F Mushi, Olga Loza, Benjamin Sunday, Alison Fiona Sandeman, Derek James Sloan, Fernando Benitez-Paez, Joseph R Mwanga, Wilber Sabiiti, Matthew Holden,
Antimicrobial Resistance & Infection Control 2023 vol. 12
The SARS-CoV-2 Alpha variant was associated with increased clinical severity of COVID-19 in Scotland David J. Pascall, Elen Vink, Rachel Blacow, Naomi Bulteel, Alasdair Campbell, Robyn Campbell, Sarah Clifford, Chris Davis, Ana da Silva Filipe, Noha El Sakka, Ludmila Fjodorova, Ruth Forrest, Emily Goldstein, Rory Gunson, John Haughney, Matthew Holden, Patrick Honour, Joseph Hughes, Edward James, Tim Lewis, Samantha Lycett, Oscar MacLean, Martin Patrick McHugh, Guy Mollett, Yusuke Onishi, Ben Parcell, Surajit Ray, David L. Robertson, Sharif Shabaan, James G. Shepherd, Katherine Smollett, Kate Templeton, Elizabeth Wastnedge, Craig Wilkie, Thomas Williams, Emma C. Thomson, The COVID-19 Genomics UK (COG-UK) Consortium
PLoS ONE 2023 vol. 18
Chiropterans are a hotspot for horizontal transfer of DNA transposons in mammalia Nicole S Paulat, Jessica M Storer, Diana D Moreno-Santillán, Austin B Osmanski, Kevin A M Sullivan, Jenna R Grimshaw, Jennifer Korstian, Michaela Halsey, Carlos J Garcia, Claudia Crookshanks, Jaquelyn Roberts, Arian F A Smit, Robert Hubley, Jeb Rosen, Emma C Teeling, Sonja Vernes, Eugene Myers, Martin Pippel, Thomas Brown, Michael Hiller, Zoonomia Consortium, Danny Rojas, Liliana M Dávalos, Kerstin Lindblad-Toh, Elinor K Karlsson, David A Ray
Molecular Biology and Evolution 2023 vol. 40
Molecular characterizations of the coagulase-negative staphylococci species causing urinary tract infection in Tanzania Shukrani Phillip, Martha F. Mushi, Arun Decano, Jeremiah Seni, Blandina T. Mmbaga, Happiness Kumburu, Eveline T. Konje, Joseph R. Mwanga, Benson R. Kidenya, Betrand Msemwa, Stephen Henry Gillespie, Antonio Maldonado-Barragan, Alison Fiona Sandeman, Wilber Sabiiti, Matthew Holden, Stephen Mshana
Pathogens 2023 vol. 12
An eggshell-localised annexin plays a key role in the coordination of the life cycle of a plant-parasitic nematode with its host James Alexander Price, Mohammad Ali, Louise Laura Major, Terry K Smith, John Jones
PLoS Pathogens 2023 vol. 19
The geometry of evolutionary conflict Petri Tapio Rautiala, Andy Gardner
Proceedings of the Royal Society of London Series B: Biological Sciences 2023 vol. 290
Inclusive fitness Antonio Rodrigues, Andy Gardner
2023 pp. 343-360
Inclusive fitness theory as scientific revolution Antonio Rodrigues, Andy Gardner
2023 pp. 543-547
On monism and pluralism Antonio Rodrigues, Andy Gardner
2023 pp. 369-372
Antiviral signaling by a cyclic nucleotide activated CRISPR protease Christophe Marcel Joseph Rouillon, Niels Schneberger, Katja Blumenstock, Stefano Da Vela, Katrin Ackermann, Jonas Moecking, Martin F. Peter, Wolfgang Boenigk, Reinhard Seifert, Bela Ernest Bode, Jonathan L. Schmid-Burgk, Dmitri Svergun, Matthias Geyer, Malcolm White,
Nature 2023 vol. 614 pp. 168–174
Within-generation and transgenerational social plasticity interact during rapid adaptive evolution Nathan William Bailey
Evolution 2023 vol. 77 pp. 409–421
Population genetic analysis of Plasmodium knowlesi reveals differential selection and exchange events between Borneo and Peninsular sub-populations Anna Turkiewicz, Emilia Manko, Damiola R. Oresegun, Debbie Nolder, Anton Spadar, Colin J. Sutherland, Janet Cox-Singh, Robert W. Moon, Yee-Ling Lau, Susana Campino, Taane G. Clark
Scientific Reports 2023 vol. 13
POT-3 preferentially binds the terminal DNA-repeat on the telomeric G-overhang Helder Ferreira
Nucleic Acids Research 2023 vol. 51 pp. 610–618
Treatment seeking behaviours, antibiotic use and relationships to multi-drug resistance Keina Sado, Katherine Lisa Keenan, Areti Manataki, Mike Kesby, Martha Mushi, Stephen Mshana, Joseph Mwanga, Stella Neema, Benon Asiimwe, Joel Bazira, John Kiiru, Dominique LaShari Green, Antonio Maldonado-Barragan, Mary Abed Al Ahad, Kathryn Jean Fredricks, Stephen Henry Gillespie, Wilber Sabiiti, Blandina T Mmbaga, Gibson Kibiki, David Aanensen, V Anne Smith, Alison Fiona Sandeman, Derek James Sloan, Matthew Holden
2023
Amphioxus muscle transcriptomes reveal vertebrate-like myoblast fusion genes and a highly conserved role of insulin signalling in the metabolism of muscle David Ellard Keith Ferrier
BMC Genomics 2022 vol. 23
ARHGEF39, a gene implicated in developmental language disorder, activates RHOA and is involved in cell de-adhesion and neural progenitor cell proliferation Midas Anijs, Paolo Devanna, Sonja Vernes
Frontiers in Molecular Neuroscience 2022 vol. 15
Cyclic nucleotide signaling in phage defense and counter-defense Januka S. Athukoralage, Malcolm White
Annual Review of Virology 2022 vol. 9 pp. 451-468
The indirect genetic effect interaction coefficient ψ Nathan William Bailey, Camille Desjonqueres
Journal of Heredity 2022 vol. 113 pp. 79–90
Bringing bioinformatics to schools with the 4273pi project Stevie Bain, Heleen Plaisier, Felicity Anderson, Nicola Cook, Kathryn Crouch, Thomas Robert Meagher, Michael Gordon Ritchie, Edward Wallace, Daniel Barker
PLoS Computational Biology 2022 vol. 18
Genetic variance in fitness indicates rapid contemporary adaptive evolution in wild animals Timothée Bonnet, Michael Blair Morrissey, Pierre de Villemereuil, Susan C. Alberts, Peter Arcese, Liam D. Bailey, Stan Boutin, Patricia Brekke, Lauren J. N. Brent, Glauco Camenisch, Anne Charmantier, Tim H. Clutton-Brock, Andrew Cockburn, David W. Coltman, Alexandre Courtiol, Eve Davidian, Simon R. Evans, John G. Ewen, Marco Festa-Bianchet, Christophe de Franceschi, Lars Gustafsson, Oliver P. Höner, Thomas M. Houslay, Lukas F. Keller, Marta Manser, Andrew G. McAdam, Emily McLean, Pirmin Nietlisbach, Helen L. Osmond, Josephine M. Pemberton, Erik Postma, Jane M. Reid, Alexis Rutschmann, Anna W. Santure, Ben C. Sheldon, Jon Slate, Céline Teplitsky, Marcel E. Visser, Bettina Wachter, Loeske E. B. Kruuk
Science 2022 vol. 376 pp. 1012-1016
Nucleotide usage biases distort inferences of the species tree Rui Borges, Bastien Boussau, Gergely J Szöllősi, Carolin Kosiol
Genome Biology and Evolution 2022 vol. 14
The architecture of clonal expansions in morphologically normal tissue from cancerous and non-cancerous prostates Claudia Buhigas, Anne Y. Warren, Wing-Kit Leung, Hayley Whitaker, Hayley J. Luxton, Steve Hawkins, Jonathan Kay, Adam Butler, Yaobo Xu, Dan Woodcock, Sue Merson, Fiona M. Frame, Atef Sahli, Federico Abascal, Iñigo Martincorena, G. Steven Bova, Christopher S. Foster, Peter Campbell, Norman Maitland, David E. Neal, Charlie E. Massie, Andy Lynch, Rosalind A. Eeles, Colin S. Cooper, David C. Wedge, Univ Anglia
Molecular Cancer 2022 vol. 21
Rare germline variants are associated with rapid biochemical recurrence after radical prostate cancer treatment Daniel Burns, Ezequiel Anokiana, Edward J Saunders, Robert G Bristow, Michael Fraser, Jüri Reimand, Thorsten Schlomm, Guido Sauter, Benedikt Brors, Jan Korbeli, Joachim Weischenfeldt, Sebastian M Waszak, Niall M Corcoran, Chol-Hee Jung, Bernard J Pope, Chris M Hovens, Géraldine Cancel-Tassin, Olivier Cussenot, Massimo Loda, Chris Sander, Vanessa M Hayes, Karina Dalsgaard Sorensen, Yong-Jie Lu, Freddie C Hamdy, Christopher S Foster, Vincent Gnanapragasam, Adam Butler, Andy Lynch, Charlie E Massie, Dan J Woodcock, Colin S Cooper, David C Wedge, Daniel S Brewer, Zsofia Kote-Jarai, Rosalind Eeles
European Urology 2022 vol. 82 pp. 201-211
Genome sequence of the English grain aphid, Sitobion avenae and its endosymbiont Buchnera aphidicola Stephen Byrne, Maximilian Schughart, James C Carolan, Michael Gaffney, Peter Jacob Thorpe, Gaynor Malloch, Tom Wilkinson, Louise McNamara
G3: Genes, Genomes, Genetics 2022 vol. 12
Density-dependent dispersal promotes female-biased sex allocation in viscous populations Andy Gardner
Biology Letters 2022 vol. 18
KIAA0319 influences cilia length, cell migration and mechanical cell-substrate interaction Nils Michael Kronenberg, Angela Martinelli, Andrew Clive Riches, Malte Christian Gather, Silvia Paracchini
Scientific Reports 2022 vol. 12
Contradictory phylogenetic signals in the laurasiatheria anomaly zone Liliya Doronina, Graham M. Hughes, Diana Moreno-Santillan, Colleen Lawless, Tadhg Lonergan, Louise Ryan, David Jebb, Bogdan M. Kirilenko, Jennifer M. Korstian, Liliana M. Dávalos, Sonja Vernes, Eugene W. Myers, Emma C. Teeling, Michael Hiller, Lars S. Jermiin, Jürgen Schmitz, Mark S. Springer, David A. Ray
Genes 2022 vol. 13
Discovery of 42 genome-wide significant loci associated with dyslexia Catherine Doust, Pierre Fontanillas, Else Eising, Scott D Gordon, Zhengjun Wang, Gökberk Alagöz, Barbara Moltz, Beate St Pourcain, Clyde Francks, Riccardo E Marioni, Jingjing Zhao, Silvia Paracchini, Joel B Talcott, Anthony P Monaco, John F Stein, Jeffrey R Gruen, Richard K Olson, Erik G Willcutt, John C DeFries, Bruce F Pennington, Shelley D Smith, Margaret J Wright, Nicholas G Martin, Adam Auton, Timothy C Bates, Simon E Fisher, Michelle Luciano
Nature Genetics 2022 vol. 54 pp. 1621-1629
Auditory cortex asymmetries relate to vocabulary knowledge because of shared polygenic influences Mark A. Eckert, Kenneth I. Vaden, Jr. , Silvia Paracchini
2022
Genome-wide analyses of individual differences in quantitatively assessed reading- and language-related skills in up to 34,000 people Else Elsing, Nazine Mirza-Schreiber, Eveline L. De Zeeuw, Carol A. Wang, Dongnhu T. Truong, Andrea G. Allegrini, Chin Yang Shapland, Gu Zhu, Karen G. Wigg, Margot Gerritse, Barbara Molz, Gökberk Alagöz, Alessandro Gialluisi, Kaili Rimfeld, Marjolein van Donkelaar, Zhijie Liao, Philip R. Jansen, Till F. M. Andlauer, Timothy C. Bates, Manon Bernard, Kirsten Blokland, Milene Bonte, Anders D. Børglum, Thomas Bourgeron, Daniel Brandeis, Fabiola Ceroni, Valeria Csépe, Philip S. Dale, Peter F. de Jong, John C. DeFries, Jean-François Démonet, Ditte Demontis, Yu Feng, Scott D. Gordon, Sharon L. Guger, Marianna E. Hayiou-Thomas, Juan A. Hernández-Cabrera, Jouke-Jan Hottenga, Charles Hulme, Juha Kere, Elizabeth N. Kerr, Tanner Koomar, Karin Landerl, Gabriel Leonard, Maureen W. Lovett, Heikki Lyytinen, Nicholas G. Martin, Angela Martinelli, Urs Maurer, Jacob Michaelson, Kristina Moll, Anthony P. Monaco, Angela T. Morgan, Markus M. Noethen, Zdenka Pausova, Craig E. Pennell, Bruce F. Pennington, Kaitlyn M. Price, Veera M. Rajagopal, Franck Ramus, Louis Richer, Nuala H. Simpson, Shelley Smith, Margaret J. Snowling, John Stein, Lisa J. Strug, Joel B. Talcott, Henning Tiemeier, Marc M.P. van der Schroeff, Ellen Verhoef, Kate E. Watkins, Margaret Wilkinson, Margaret J. Wright, Cathy L. Barr, Dorret I. Boomsma, Manuel Carreiras, Marie-Christine J. Franken, Jeffrey R. Gruen, Michelle Luciano, Bertram Müller-Myhsok, Dianne F. Newbury, Richard . Olson, Silvia Paracchini, Tomas Paus, Robert Plomin, Sheena Reilly, Gerd Schulte-Körne, Bruce Tomblin, Elsje van Bergen, Andrew J.O. Whitehouse, Erik G. Willcutt, Beate St Pourcain, Clyde Francks, Simon E. Fisher
Proceedings of the National Academy of Sciences of the United States of America 2022 vol. 119
The era of reference genomes in conservation genomics Giulio Formenti, Kathrin Theissinger, Carlos Fernandes, Iliana Bista, Aureliano Bombarely, Christoph Bleidorn, Claudio Ciofi, Angelica Crottini, José A. Godoy, Jacob Höglund, Joanna Malukiewicz, Alice Mouton, Rebekah A. Oomen, Sadye Paez, Per J. Palsbøll, Christophe Pampoulie, María J. Ruiz-López, Hannes Svardal, Constantina Theofanopoulou, Jan de Vries, Ann-Marie Waldvogel, Guojie Zhang, Camila J. Mazzoni, Erich D. Jarvis, Miklós Bálint, Fedor Čiampor, Jacob Hoglund, Per Palsbøll, María José Ruiz-López, Goujie Zhang, Erich Jarvis, Sargis A. Aghayan, Tyler S. Alioto, Isabel Almudi, Nadir Alvarez, Paulo C. Alves, Isabel R. Amorim, Agostinho Antunes, Paula Arribas, Petr Baldrian, Paul R. Berg, Giorgio Bertorelle, Astrid Böhne, Andrea Bonisoli-Alquati, Ljudevit L. Boštjančić, Bastien Boussau, Catherine M. Breton, Elena Buzan, Paula F. Campos, Sonja Vernes,
Trends in Ecology & Evolution 2022 vol. 37 pp. 197-202
Causation, not collinearity Sam Froman Walmsley, Michael Blair Morrissey
Evolution Letters 2022 vol. 6 pp. 234-244
HPV status and HPV16 viral load in anal cancer and its association with clinical outcome Raluca Grigorescu, Anna Kirk, Andrew Stevenson, Matthew Holden, Jiafeng Pan, Kim Kavanagh, Sheila V. Graham, Kate Cuschieri
Cancer Medicine 2022 vol. 11 pp. 4193-4203
Mapping HPV 16 sub-lineages in anal cancer and implications for disease outcomes Sara Arroyo-Mühr, Raluca Grigorescu, Matthew Holden, Kate Cuschieri
Diagnostics 2022 vol. 12
Identification of plasma proteins associated with oesophageal cancer chemotherapeutic treatment outcomes using SWATH-MS Giorgos Minas, Silvia Anna Synowsky, Margaret R. Dunne, Hasnain Ahmed, Rhiannon McShane, Anshul Bhardwaj, Noel E. Donlon, Cliona Lorton, Jacintha O'Sullivan, John V. Reynolds, Peter David Caie, Sally Lorna Shirran, Andy Lynch, Alan J. Stewart, Swati Arya
Journal of Proteomics 2022 vol. 266
Paternal genome elimination promotes altruism in viscous populations Andy Gardner
Evolution 2022 vol. 76 pp. 2191-2198
Cyclic nucleotide-induced helical structure activates a TIR immune effector Gaelle Hogrel, Abbie Guild, Shirley Graham, Hannah Rickman, Sabine Gruschow, Quentin Bertrand, Laura Spagnolo, Malcolm White
Nature 2022 vol. 608 pp. 808–812
Bayesian Networks as a novel tool to enhance interpretability and predictive power of ecological models Richard Stafford, Iain McCombe Matthews, V Anne Smith
Ecological Informatics 2022 vol. 68
Microbiomes of urine and the prostate are linked to human prostate cancer risk groups Rachel Hurst, Emma Meader, Abraham Gihawi, Ghanasyam Rallapalli, Jeremy Clark, Gemma L. Kay, Martyn Webb, Kate Manley, Helen Curley, Helen Walker, Ravi Kumar, Katarzyna Schmidt, Lisa Crossman, Rosalind A. Eeles, David C. Wedge, Andy Lynch, Charlie E. Massie, Marcelino Yazbek-Hanna, Mark Rochester, Robert D. Mills, Richard F. Mithen, Maria H. Traka, Richard Y. Ball, Justin O'Grady, Daniel S. Brewer, John Wain, Colin S. Cooper
European Urology Oncology 2022 vol. 5 pp. 412-419
Population viscosity promotes altruism under density-dependent dispersal Jasmeen Kaur Kanwal, Andy Gardner
Proceedings of the Royal Society of London Series B: Biological Sciences 2022 vol. 289
Treatment of missing data in Bayesian network structure learning Katherine Lisa Keenan, V Anne Smith
BMC Medical Research Methodology 2022 vol. 22
Salmonella exhibit altered cellular localization in the presence of HLA-B27 and codistribute with endo-reticular membrane Janos Kriston-Vizi, Izabela Lenart, Takao Iwawaki, Keith Gould, Darren Nesbeth, Simon John Powis, Antony N. Antoniou
Journal of Immunology Research 2022 vol. 2022 pp. 1-9
Tumour-associated antigenic peptides are present in the HLA class I ligandome of cancer cell line derived extracellular vesicles Pankaj Kumar, Caitlin Margaret Boyne, Ayesha Qureshi, Peter Jacob Thorpe, Silvia Anna Synowsky, Sally Lorna Shirran, Simon John Powis
Immunology 2022 vol. 166 pp. 249-264
Genomic surveillance of Salmonella spp. in the Philippines during 2013-2014 Marietta L Lagrada, Silvia Argimón, Janice B Borlasa, Jaywardeen P Abad, June M Gayeta, Melissa L Masim, Agnettah M Olorosa, Victoria Cohen, Benjamin Jeffrey, Khalil Abudahab, Sonia B Sia, Charmian M Hufano, John Stelling, Matthew Holden, David M Aanensen, Celia C Carlos
Transactions of the Royal Society of Tropical Medicine and Hygiene 2022 vol. 116 pp. 1202-1213
Emergence of methicillin resistance predates the clinical use of antibiotics Jesper Larsen, Claire L Raisen, Xiaoliang Ba, Nicholas J Sadgrove, Guillermo F Padilla-González, Monique S J Simmonds, Igor Loncaric, Heidrun Kerschner, Petra Apfalter, Rainer Hartl, Ariane Deplano, Stien Vandendriessche, Barbora Černá Bolfíková, Pavel Hulva, Maiken C Arendrup, Rasmus K Hare, Céline Barnadas, Marc Stegger, Raphael N Sieber, Robert L Skov, Andreas Petersen, Øystein Angen, Sophie L Rasmussen, Carmen Espinosa-Gongora, Frank M Aarestrup, Laura J Lindholm, Suvi M Nykäsenoja, Frederic Laurent, Karsten Becker, Birgit Walther, Corinna Kehrenberg, Christiane Cuny, Franziska Layer, Guido Werner, Wolfgang Witte, Ivonne Stamm, Paolo Moroni, Hannah J Jørgensen, Hermínia de Lencastre, Emilia Cercenado, Fernando García-Garrote, Stefan Börjesson, Sara Hæggman, Vincent Perreten, Christopher J Teale, Andrew S Waller, Bruno Pichon, Martin D Curran, Matthew J Ellington, John J Welch, Sharon J Peacock, David J Seilly, Fiona J E Morgan, Julian Parkhill, Nazreen F Hadjirin, Jodi A Lindsay, Matthew Holden, Giles F Edwards, Geoffrey Foster, Gavin K Paterson, Xavier Didelot, Mark A Holmes, Ewan M Harrison, Anders R Larsen
Nature 2022 vol. 602 pp. 135-141
PCR duplicate proportion estimation and consequences for DNA copy number calculations Andy Lynch, Mike Smith, Matthew Eldridge, Simon Tavaré
2022 vol. 398 pp. 259-279
Degree correlations in graphs with clique clustering Peter Stephen Mann, V Anne Smith, John B. O. Mitchell, Simon Andrew Dobson
Physical Review. E, Statistical, nonlinear, and soft matter physics 2022 vol. 105
N-strain epidemic model using bond percolation Peter Stephen Mann, V Anne Smith, John B. O. Mitchell, Simon Andrew Dobson
Physical Review. E, Statistical, nonlinear, and soft matter physics 2022 vol. 106
Presence of optrA-mediated linezolid resistance in multiple lineages and plasmids of Enterococcus faecalis revealed by long read sequencing Martin Patrick McHugh, Kerry Andrea Pettigrew, Geoff Toner, Elham Khatamzas, Noha el Sakka, Anne Marie Karcher, Joanna Walker, Robert Weir, Danièle Meunier, Katie L. Hopkins, Neil Woodford, Kate E. Templeton, Stephen Henry Gillespie, Matthew Holden
Microbiology 2022 vol. 168
Ancestral sex-role plasticity facilitates the evolution of same-sex sexual behavior Nobuaki Mizumoto, Thomas Bourguignon, Nathan William Bailey
Proceedings of the National Academy of Sciences 2022 vol. 119
Analytical results for directional and quadratic selection gradients for log-linear models of fitness functions Michael Blair Morrissey, Ian Britton James Goudie
Evolution 2022 vol. 76
Non-prescribed antibiotic dispensing practices for symptoms of urinary tract infection in community pharmacies and accredited drug dispensing outlets in Tanzania Pendo M. Ndaki, Martha F. Mushi, Joseph R. Mwanga, Eveline T. Konje, Stella Mugassa, Msilikale W. Manyiri, Stanley M. Mwita, Nyanda E. Ntinginya, Blandina T. Mmbaga, Katherine Lisa Keenan, Wilber Sabiiti, Mike Kesby, Manuel Fernando Benitez Paez, Alison Fiona Sandeman, Matthew Holden, Stephen E. Mshana
BMC Primary Care 2022 vol. 23
Insights into the genetics of the Zhonghua 11 Resistance to Meloidogyne graminicola and its molecular determinism in rice Hue Thi Nguyen, Sophie Mantelin, Cuong Viet Ha, Mathias Lorieux, John Jones, Chung Duc Mai, Stéphane Bellafiore
Frontiers in Plant Science 2022 vol. 13
Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning Sema Nickbakhsh, Joseph Hughes, Nicolaos Christofidis, Emily Griffiths, Sharif Shaaban, Jessica Enright, Katherine Smollett, Kyriaki Nomikou, Natasha Palmalux, Lily Tong, Stephen Carmichael, Vattipally B. Sreenu, Richard Orton, Emily J. Goldstein, Rachael M. Tomb, Kate Templeton, Rory N. Gunson, Ana da Silva Filipe, Catriona Milosevic, Emma Thomson, David L. Robertson, Matthew Holden, Christopher J. R. Illingworth, Alison Smith-Palmer, Martin Patrick McHugh
Scientific Reports 2022 vol. 12
Biogeography in the deep Aubrie Onoufriou, Oscar Eduardo Gaggiotti, Natacha Aguilar de Soto, Morgan L. McCarthy, Phillip A. Morin, Massimiliano Rosso, Merel Dalebout, Nicholas Davison, Robin W. Baird, C. Scott Baker, Simon Berrow, Andrew Brownlow, Daniel Burns, Florence Caurant, Rochelle Constantine, Fabien Demaret, Sascha Dreyer, Martina Ðuras, John Durban, Alexandros Frantzis, Gabrielle Genty, Ana Galov, Sabine S. Hansen, Andrew C. Kitchener, Vidal Martin, Antonio A. Mignucci-Giannoni, Valeria Montano, Aurelie Moulins, Carlos Olavarría, M. Michael Poole, Cristel Reyes Suárez, Emer Rogan, Conor Ryan, Agustina Schiavi, Paola Tepsich, Jorge Urban, Kristi West, Morten Tange Olsen, Emma Louise Carroll
Global Ecology and Conservation 2022 vol. 40
De novo assembly of Plasmodium knowlesi genomes from clinical samples explain the counterintuitive intrachromosomal organization of variant SICAvar and kir multiple gene family members Peter Jacob Thorpe, Ernest D. Benavente, Susanna Campino, Muh Fauzi, Robert W. Moon, Taane G. Clark, Janet Cox-Singh
Frontiers in Genetics 2022 vol. 13
Molecular modelling of the HCMV IL-10 protein isoforms and analysis of their interaction with the human IL-10 receptor Simone Queiroz Pantaleão, Lívia de Moraes Bomediano Camillo, Tainan Cerqueira Neves, Isabela de Godoy Menezes, Lucas Matheus Stangherlin, Helena Beatriz de Carvalho Ruthner Batista, Emma Poole, Michael Martin Nevels, Eric Alisson Philot, Ana Ligia Scott, Maria Cristina Carlan da Silva
PLoS ONE 2022 vol. 17
A genome-wide association study of Chinese and English language abilities in Hong Kong Chinese children Silvia Paracchini
2022
Identification of loci involved in childhood visual acuity and associations with cognitive skill and educational attainment Silvia Paracchini, Judith Schmitz,
2022
Non-right handedness is associated with language and reading impairments Silvia Paracchini
2022
The genetics of dyslexia Silvia Paracchini
2022
Handedness in twins Lena Sophie Pfeifer, Judith Schmitz, Marietta Papadatou-Pastou, Jutta Peterburs, Silvia Paracchini, Sebastian Ocklenburg
BMC Psychology 2022 vol. 10
Hypothesis-driven genome-wide association studies provide novel insights into genetics of reading disabilities Kaitlyn M. Price, Karen G. Wigg, Else Eising, Yu Feng, Kirsten Blokland, Margaret Wilkinson, Elizabeth N. Kerr, Sharon L. Guger, Simon E. Fisher, Maureen W. Lovett, Lisa J. Strug, Cathy L. Barr, Silvia Paracchini
Translational Psychiatry 2022 vol. 12
Life Sciences New Talent collection Malcolm White, Steve Brown
Royal Society Open Science 2022 vol. 9
A synthesis of senescence predictions for indeterminate growth, and support from multiple tests in wild lake trout Craig F Purchase, Anna C Rooke, Michael J Gaudry, Jason R Treberg, Lizy Mittell, Michael Blair Morrissey, Michael D Rennie
Proceedings. Biological sciences 2022 vol. 289
Deciphering signatures of natural selection via deep learning Xinghu Qin, Charleston Chiang, Oscar Eduardo Gaggiotti
Briefings in Bioinformatics 2022 vol. 23
Information-based summary statistics for spatial genetic structure inference Xinghu Qin, Oscar Eduardo Gaggiotti
Molecular Ecology Resources 2022 vol. 22 pp. 2183-2195
KLFDAPC Xinghu Qin, Charleston W K Chiang, Oscar Eduardo Gaggiotti
Briefings in Bioinformatics 2022 vol. 23
The persistence and evolutionary consequences of vestigial behaviours Jack Gregory Rayner, Nathan William Bailey
Biological Reviews of the Cambridge Philosophical Society 2022 vol. 97 pp. 1389-1407
Quantitative multidimensional phenotypes improve genetic analysis of laterality traits Judith Schmitz, Mo Zheng, Kelvin F. H. Lui, Catherine McBride, Connie S.-H. Ho, Silvia Paracchini
Translational Psychiatry 2022 vol. 12
Structure and mechanism of the type I-G CRISPR effector Shirley Graham, Ramasubramanian Sundaramoorthy, Malcolm White
Nucleic Acids Research 2022 vol. 50 pp. 11214-11228
The genome and lifestage-specific transcriptomes of a plant-parasitic nematode and its host reveal susceptibility genes involved in trans-kingdom synthesis of vitamin B5 Shahid Siddique, Zoran S. Radakovic, Clarissa Hiltl, Clement Pellegrin, Thomas J. Baum, Helen Beasley, Andrew F. Bent, Oliver Chitambo, Divykriti Chopra, Etienne G. J. Danchin, Eric Grenier, Samer S. Habash, M. Shamim Hasan, Johannes Helder, Tarek Hewezi, Julia Holbein, Martijn Holterman, Sławomir Janakowski, Georgios D. Koutsovoulos, Olaf P. Kranse, Jose L. Lozano-Torres, Tom R. Maier, Rick E. Masonbrink, Badou Mendy, Esther Riemer, Mirosław Sobczak, Unnati Sonawala, Mark G. Sterken, Peter Jacob Thorpe, Joris J. M. van Steenbrugge, Nageena Zahid, Florian Grundler, Sebastian Eves-van den Akker
Nature Communications 2022 vol. 13
World Society for Virology first international conference Maria Söderlund-Venermo, Anupam Varma, Deyin Guo, Douglas P. Gladue, Emma L. Poole, Flor H. Pujol, Hanu Pappu, Jesús L. Romalde, Laura Kramer, Mariana Baz, Marietjie Venter, Matthew D. Moore, Michael Martin Nevels, Sayeh Ezzikouri, Vikram N. Vakharia, William C. Wilson, Yashpal S. Malik, Zhengli Shi, Ahmed S. Abdel-Moneim
Virology 2022 vol. 566 pp. 114-121
Evolutionary diversification of the canonical Wnt signaling effector TCF/LEF in chordates Nuria Torres, Marika Salonna, Stefan Hoppler, David Ellard Keith Ferrier
Development, Growth & Differentiation 2022 vol. 64 pp. 120-137
Statistical challenges in mutational signature analyses of cancer sequencing data Victor Velasco Pardo, Michail Papathomas, Andy Lynch
2022 pp. 241-258
The pale spear-nosed bat Sonja Vernes, Paolo Devanna, Stephen Hoerpel, Ine Alvarez van Tussenbroek, Uwe Firzlaff, Peter Hagoort, Michael Hiller, Nienke Hoeksema, Graham M. Hughes, Ksenia Lavrichenko, Janine Mengede, Ariadna Morales, Maximilian Wiesmann
Annals of the New York Academy of Sciences 2022 vol. 1517 pp. 125-142
Light-induced asymmetries in embryonic retinal gene expression are mediated by the vascular system and extracellular matrix Elisabetta Versace, Paola Sgadò, Julia George, Jasmine L. Loveland, Joseph Ward, Peter Jacob Thorpe, Lars Juhl Jensen, Karen Anne Spencer, Silvia Paracchini, Giorgio Vallortigara
Scientific Reports 2022 vol. 12
A Bayesian network structure learning approach to identify genes associated with stress in spleens of chickens Emiliano Ariel Videla Rodriguez, John B. O. Mitchell, V Anne Smith
Scientific Reports 2022 vol. 12
Practical application of a Bayesian network approach to poultry epigenetics and stress Emiliano Ariel Videla Rodriguez, Fábio Pértille, Carlos Guerrero-Bosagna, John B. O. Mitchell, Per Jensen, V Anne Smith
BMC Bioinformatics 2022 vol. 23
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, Wilhelm Furnon, Diego Cantoni, Sam Scott, Nicola Logan, Shirin Ashraf, Maria Manali, Agnieszka Szemiel, Vanessa Cowton, Elen Vink, William T. Harvey, Chris Davis, Patawee Asamaphan, Katherine Smollett, Lily Tong, Richard Orton, Joseph Hughes, Poppy Holland, Vanessa Silva, David J. Pascall, Kathryn Puxty, Ana da Silva Filipe, Gonzalo Yebra, Sharif Shaaban, Matthew Holden, Rute Maria Pinto, Rory Gunson, Kate Templeton, Pablo R. Murcia, Arvind H. Patel, Paul Klenerman, Susanna Dunachie, John Haughney, David L. Robertson, Massimo Palmarini, Surajit Ray, Emma C. Thomson
Nature Microbiology 2022 vol. First Online
The genus Serratia revisited by genomics David J. Williams, Patrick A. D. Grimont, Adrián Cazares, Francine Grimont, Elisabeth Ageron, Kerry Andrea Pettigrew, Daniel Cazares, Elisabeth Njamkepo, François-Xavier Weill, Eva Heinz, Matthew Holden, Nicholas R. Thomson, Sarah J. Coulthurst
Nature Communications 2022 vol. 13
Divergence and introgression among the virilis group of Drosophila Venera Tyukmaeva, Anneli Hoikkala, Michael Gordon Ritchie
Evolution Letters 2022 vol. 6 pp. 537-551
Improved understanding of the role of gene and genome duplications in chordate evolution with new genome and transcriptome sequences David Ellard Keith Ferrier
Frontiers in Ecology and Evolution 2021 vol. 9
Protocol for an interdisciplinary cross-sectional study investigating the social, biological and community-level drivers of antimicrobial resistance (AMR) Benon Asiimwe, John Kiiru, Stephen Mshana, Stella Neema, Katherine Lisa Keenan, Mike Kesby, Joseph R. Mwanga, Derek James Sloan, Blandina T. Mmbaga, V Anne Smith, Stephen Henry Gillespie, Andy Lynch, Alison Fiona Sandeman, John Stelling, Alison Elliott, David M. Aanensen, Gibson E. Kibiki, Wilber Sabiiti, Matthew Holden,
BMJ Open 2021 vol. 11
Cyclic oligoadenylate signaling and regulation by ring nucleases during type III CRISPR defense Januka Sahan Athukoralage, Malcolm White
RNA 2021 vol. 27 pp. 855-867
A neglected conceptual problem regarding phenotypic plasticity’s role in adaptive evolution Nathan William Bailey, Camille Desjonqueres, Jack Gregory Rayner, Xiao Zhang
Evolution Letters 2021 vol. 5 pp. 444-457
The distinction between repeatability and correlation in studies of animal behaviour Miguel Borges Da Costa Guint Barbosa, Michael Blair Morrissey
Animal Behaviour 2021 vol. 175 pp. 201-217
Complete genome for Actinobacillus pleuropneumoniae serovar 8 reference strain 405 Janine T. Bossé, Yanwen Li, Liza Miriam Cohen, Marc Stegger, Øystein Angen, Sonia Lacouture, Marcelo Gottschalk, Liancheng Lei, Miriam Koene, Peter Kuhnert, Aloka B. Bandara, Thomas J. Inzana, Matthew Holden, David Harris, Olusegun Oshota, Duncan J. Maskell, Alexander W. Tucker, Brendan W. Wren, Andrew N. Rycroft, Paul R. Langford,
Microbial Genomics 2021 vol. 7
Rationally designed mariner vectors for functional genomic analysis of Actinobacillus pleuropneumoniae and other Pasteurellaceae species by transposon-directed insertion-site sequencing (TraDIS) Janine T. Bossé, Yanwen Li, Leon G. Leanse, Liqing Zhou, Roy R. Chaudhuri, Sarah E. Peters, Jinhong Wang, Gareth A. Maglennon, Matthew Holden, Duncan J. Maskell, Alexander W. Tucker, Brendan W. Wren, Andrew N. Rycroft, Paul R. Langford, Alexander W. (. Dan) Tucker, Lucy A. Weinert, Jinhong (. Tracy) Wang, Shi-Lu Luan, Jessica Beddow, Jon Cuccui, Vanessa S. Terra, on behalf of the BRaDP1T consortium
Animal Diseases 2021 vol. 1
What is the role of HLA-I on cancer derived extracellular vesicles? Defining the challenges in characterisation and potential uses of this ligandome Caitlin Margaret Boyne, Simon John Powis, Pankaj Kumar
International Journal of Molecular Sciences 2021 vol. 22
Speciation in the deep Emma Louise Carroll, Michael R. McGowen, Morgan L. McCarthy, Felix G. Marx, Natacha Aguilar, Merel L. Dalebout, Sascha Dreyer, Oscar Eduardo Gaggiotti, Sabine S. Hansen, Anton van Helden, Aubrie Onoufriou, Robin W. Baird, C. Scott Baker, Simon Berrow, Danielle Cholewiak, Rochelle Constantine, Nicholas J. Davison, Catarina Eira, R. Ewan Fordyce, John Gatesy, G. J. Greg Hofmeyr, Vidal Martín, James G. Mead, Antonio A. Mignucci-Giannoni, Phillip A. Morin, Cristel Reyes, Emer Rogan, Massimiliano Rosso, Mark S. Springer, Debbie Steel, Morten Tange Olsen
Proceedings of the Royal Society B: Biological Sciences 2021 vol. 288
Genomic surveillance of Acinetobacter baumannii in the Philippines, 2013-2014 J Chilam, S Argimon, MT Limas, ML Masim, JM Gayeta, ML Lagrada, AM Olorosa, V Cohen, LT Hernandez, B Jeffrey, K Abudahab, CM Hufano, SB Sia, Matthew Holden, J Stelling, DM Aanensen, CC Carlos,
Western Pacific Surveillance and Response Journal 2021 vol. 12

Cookie preferences