Paul P. Gardner
Paul P. Gardner
University of Otago, New Zealand
Verified email at - Homepage
Cited by
Cited by
Rfam 12.0: updates to the RNA families database
EP Nawrocki, SW Burge, A Bateman, J Daub, RY Eberhardt, SR Eddy, ...
Nucleic acids research 43 (D1), D130-D137, 2015
Comparative genomics reveals insights into avian genome evolution and adaptation
G Zhang, C Li, Q Li, B Li, DM Larkin, C Lee, JF Storz, A Antunes, ...
Science 346 (6215), 1311-1320, 2014
Rfam: updates to the RNA families database
PP Gardner, J Daub, JG Tate, EP Nawrocki, DL Kolbe, S Lindgreen, ...
Nucleic acids research 37 (suppl 1), D136-D140, 2009
Rfam 11.0: 10 years of RNA families
SW Burge, J Daub, R Eberhardt, J Tate, L Barquist, EP Nawrocki, ...
Nucleic acids research 41 (D1), D226-D232, 2013
A comprehensive comparison of comparative RNA structure prediction approaches
PP Gardner, R Giegerich
BMC bioinformatics 5 (1), 140, 2004
Rfam: Wikipedia, clans and the “decimal” release
PP Gardner, J Daub, J Tate, BL Moore, IH Osuch, S Griffiths-Jones, ...
Nucleic acids research 39 (suppl 1), D141-D145, 2011
A benchmark of multiple sequence alignment programs upon structural RNAs
PP Gardner, A Wilm, S Washietl
Nucleic acids research 33 (8), 2433-2439, 2005
An evaluation of the accuracy and speed of metagenome analysis tools
S Lindgreen, KL Adair, P Gardner
Scientific Reports 6 (19), doi:10.1038/srep19233, 2016
A strand-specific RNA–Seq analysis of the transcriptome of the typhoid bacillus salmonella typhi
TT Perkins, RA Kingsley, MC Fookes, PP Gardner, KD James, L Yu, ...
PLoS genetics 5 (7), 2009
Convergent regulatory evolution and loss of flight in paleognathous birds
TB Sackton, P Grayson, A Cloutier, Z Hu, JS Liu, NE Wheeler, PP Gardner, ...
Science 364 (6435), 74-78, 2019
Identification of miRNA targets with stable isotope labeling by amino acids in cell culture
J Vinther, MM Hedegaard, PP Gardner, JS Andersen, P Arctander
Nucleic acids research 34 (16), e107-e107, 2006
Exploring genomic dark matter: a critical assessment of the performance of homology search methods on noncoding RNA
EK Freyhult, JP Bollback, PP Gardner
Genome research 17 (1), 117-125, 2007
Towards robust and repeatable sampling methods in eDNA based studies
IA Dickie, S Boyer, H Buckley, RP Duncan, P Gardner, ID Hogg, ...
Molecular Ecology Resources, 2018
A comparison of RNA folding measures
E Freyhult, PP Gardner, V Moulton
BMC bioinformatics 6 (1), 241, 2005
Comparative genomic data of the Avian Phylogenomics Project
G Zhang, B Li, C Li, MTP Gilbert, ED Jarvis, J Wang, TAG Consortium
GigaScience 3 (26), doi:10.1186/2047-217X-3-26, 2014
A comparison of dense transposon insertion libraries in the Salmonella serovars Typhi and Typhimurium
L Barquist, GC Langridge, DJ Turner, MD Phan, AK Turner, A Bateman, ...
Nucleic acids research 41 (8), 4549-4564, 2013
The tuatara genome reveals ancient features of amniote evolution
NJ Gemmell, K Rutherford, S Prost, M Tollis, D Winter, JR Macey, ...
Nature,, 2020
Essential guidelines for computational method benchmarking
LM Weber, W Saelens, R Cannoodt, C Soneson, A Hapfelmeier, ...
Genome Biology 20 (1), 125, 2019
A jumbo phage that forms a nucleus-like structure evades CRISPR–Cas DNA targeting but is vulnerable to type III RNA-based immunity
LM Malone, SL Warring, SA Jackson, C Warnecke, PP Gardner, LF Gumy, ...
Nature Microbiology 5 (1), 48-55, 2020
A VapBC Toxin-Antitoxin Module is a Post-Transcriptional Regulator of Metabolic Flux in Mycobacteria
JL McKenzie, J Robson, M Berney, TC Smith, A Ruthe, PP Gardner, ...
Journal of Bacteriology, 2012
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