Machine learning identifies signatures of host adaptation in the bacterial pathogen Salmonella enterica.

by Nicole E Wheeler, Paul P Gardner, Lars Barquist
Published 2018-05-01

Comparative analysis of RNA families reveals distinct repertoires for each domain of life.

by Marc P Hoeppner, Paul P Gardner, Anthony M Poole
Published 2012-01-01

On the optimistic performance evaluation of newly introduced bioinformatic methods

by Stefan Buchka, Alexander Hapfelmeier, Paul P. Gardner, Rory Wilson, Anne-Laure Boulesteix
Published 2021-05-01

Avoidance of stochastic RNA interactions can be harnessed to control protein expression levels in bacteria and archaea

by Sinan Uğur Umu, Anthony M Poole, Renwick CJ Dobson, Paul P Gardner
Published 2016-09-01

Ten simple rules for editing Wikipedia.

by Darren W Logan, Massimo Sandal, Paul P Gardner, Magnus Manske, Alex Bateman
Published 2010-09-01

Identifying accurate metagenome and amplicon software via a meta-analysis of sequence to taxonomy benchmarking studies

by Paul P. Gardner, Renee J. Watson, Xochitl C. Morgan, Jenny L. Draper, Robert D. Finn, Sergio E. Morales, Matthew B. Stott
Published 2019-01-01

Essential guidelines for computational method benchmarking

by Lukas M. Weber, Wouter Saelens, Robrecht Cannoodt, Charlotte Soneson, Alexander Hapfelmeier, Paul P. Gardner, Anne-Laure Boulesteix, Yvan Saeys, Mark D. Robinson
Published 2019-06-01

Conservation and losses of non-coding RNAs in avian genomes.

by Paul P Gardner, Mario Fasold, Sarah W Burge, Maria Ninova, Jana Hertel, Stephanie Kehr, Tammy E Steeves, Sam Griffiths-Jones, Peter F Stadler
Published 2015-01-01

Genomic, Transcriptomic, and Phenotypic Analyses of Neisseria meningitidis Isolates from Disease Patients and Their Household Contacts

by Xiaoyun Ren, David A. Eccles, Gabrielle A. Greig, Jane Clapham, Nicole E. Wheeler, Stinus Lindgreen, Paul P. Gardner, Joanna K. MacKichan, Peter J. Turnbaugh
Published 2017-11-01

Transposon insertion libraries for the characterization of mutants from the kiwifruit pathogen Pseudomonas syringae pv. actinidiae.

by Carl H Mesarich, Jonathan Rees-George, Paul P Gardner, Fatemeh Ashari Ghomi, Monica L Gerth, Mark T Andersen, Erik H A Rikkerink, Peter C Fineran, Matthew D Templeton
Published 2017-01-01

Long- and short-term selective forces on malaria parasite genomes.

by Sanne Nygaard, Alexander Braunstein, Gareth Malsen, Stijn Van Dongen, Paul P Gardner, Anders Krogh, Thomas D Otto, Arnab Pain, Matthew Berriman, Jon McAuliffe, Emmanouil T Dermitzakis, Daniel C Jeffares
Published 2010-09-01

Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling.

by Stinus Lindgreen, Sinan Uğur Umu, Alicia Sook-Wei Lai, Hisham Eldai, Wenting Liu, Stephanie McGimpsey, Nicole E Wheeler, Patrick J Biggs, Nick R Thomson, Lars Barquist, Anthony M Poole, Paul P Gardner
Published 2014-10-01

A strand-specific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella typhi.

by Timothy T Perkins, Robert A Kingsley, Maria C Fookes, Paul P Gardner, Keith D James, Lu Yu, Samuel A Assefa, Miao He, Nicholas J Croucher, Derek J Pickard, Duncan J Maskell, Julian Parkhill, Jyoti Choudhary, Nicholas R Thomson, Gordon Dougan
Published 2009-07-01

Analysis of the genome of the New Zealand giant collembolan (Holacanthella duospinosa) sheds light on hexapod evolution

by Chen Wu, Melissa D. Jordan, Richard D. Newcomb, Neil J. Gemmell, Sarah Bank, Karen Meusemann, Peter K. Dearden, Elizabeth J. Duncan, Sefanie Grosser, Kim Rutherford, Paul P. Gardner, Ross N. Crowhurst, Bernd Steinwender, Leah K. Tooman, Mark I. Stevens, Thomas R. Buckley
Published 2017-10-01