Paul P. Gardner
Paul P. Gardner
University of Otago, New Zealand
Verified email at otago.ac.nz - Homepage
TitleCited byYear
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
7402009
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
6722013
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
6082015
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
4912014
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
4092011
A comprehensive comparison of comparative RNA structure prediction approaches
PP Gardner, R Giegerich
BMC bioinformatics 5 (1), 140, 2004
4012004
A benchmark of multiple sequence alignment programs upon structural RNAs
PP Gardner, A Wilm, S Washietl
Nucleic acids research 33 (8), 2433-2439, 2005
2962005
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), e1000569, 2009
2402009
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
1682016
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
1512006
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
1262007
A comparison of RNA folding measures
E Freyhult, PP Gardner, V Moulton
BMC bioinformatics 6 (1), 241, 2005
1152005
Genome-wide discovery and verification of novel structured RNAs in Plasmodium falciparum
T Mourier, C Carret, S Kyes, Z Christodoulou, PP Gardner, DC Jeffares, ...
Genome research 18 (2), 281-292, 2008
952008
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
772012
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
742013
MASTR: multiple alignment and structure prediction of non-coding RNAs using simulated annealing
S Lindgreen, PP Gardner, A Krogh
Bioinformatics 23 (24), 3304-3311, 2007
742007
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
732014
The RNA WikiProject: community annotation of RNA families
J Daub, PP Gardner, J Tate, D Ramsköld, M Manske, WG Scott, ...
Rna 14 (12), 2462-2464, 2008
662008
A search for H/ACA snoRNAs in yeast using MFE secondary structure prediction
S Edvardsson, PP Gardner, AM Poole, MD Hendy, D Penny, V Moulton
Bioinformatics 19 (7), 865-873, 2003
612003
Measuring covariation in RNA alignments: physical realism improves information measures
S Lindgreen, PP Gardner, A Krogh
Bioinformatics 22 (24), 2988-2995, 2006
602006
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