| OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy DM Emms, S Kelly Genome Biology 16 (1), 1-14, 2015 | 514 | 2015 |
| TransRate: reference-free quality assessment of de novo transcriptome assemblies R Smith-Unna, C Boursnell, R Patro, JM Hibberd, S Kelly Genome research 26 (8), 1134-1144, 2016 | 181 | 2016 |
| Functional genomics in Trypanosoma brucei: a collection of vectors for the expression of tagged proteins from endogenous and ectopic gene loci S Kelly, J Reed, S Kramer, L Ellis, H Webb, J Sunter, J Salje, N Marinsek, ... Molecular and biochemical parasitology 154 (1), 103-109, 2007 | 141 | 2007 |
| Exon skipping is correlated with exon circularization S Kelly, C Greenman, PR Cook, A Papantonis Journal of molecular biology 427 (15), 2414-2417, 2015 | 120 | 2015 |
| Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns FW Li, JC Villarreal, S Kelly, CJ Rothfels, M Melkonian, E Frangedakis, ... Proceedings of the National Academy of Sciences 111 (18), 6672-6677, 2014 | 95 | 2014 |
| Archaeal phylogenomics provides evidence in support of a methanogenic origin of the Archaea and a thaumarchaeal origin for the eukaryotes S Kelly, B Wickstead, K Gull Proceedings of the Royal Society B: Biological Sciences 278 (1708), 1009-1018, 2011 | 83 | 2011 |
| Deep Evolutionary Comparison of Gene Expression Identifies Parallel Recruitment of Trans-Factors in Two Independent Origins of C4 Photosynthesis. S Aubry, S Kelly, BM Kümpers, RD Smith-Unna, JM Hibberd PLoS genetics 10 (6), e1004365, 2014 | 82 | 2014 |
| Genome‐wide transcript analysis of early maize leaf development reveals gene cohorts associated with the differentiation of C4 Kranz anatomy P Wang, S Kelly, JP Fouracre, JA Langdale The Plant Journal 75 (4), 656-670, 2013 | 72 | 2013 |
| MergeAlign: improving multiple sequence alignment performance by dynamic reconstruction of consensus multiple sequence alignments PW Collingridge, S Kelly BMC bioinformatics 13 (1), 117, 2012 | 67 | 2012 |
| Genome-wide analysis reveals extensive functional interaction between DNA replication initiation and transcription in the genome of Trypanosoma brucei C Tiengwe, L Marcello, H Farr, N Dickens, S Kelly, M Swiderski, ... Cell reports 2 (1), 185-197, 2012 | 64 | 2012 |
| Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains CA Brackley, J Johnson, S Kelly, PR Cook, D Marenduzzo Nucleic Acids Research 44 (8), 3503-3512, 2016 | 63 | 2016 |
| Phylogenetic trees do not reliably predict feature diversity S Kelly, R Grenyer, RW Scotland Diversity and Distributions 20 (5), 600-612, 2014 | 59 | 2014 |
| Shared origins of a key enzyme during the evolution of C4 and CAM metabolism PA Christin, M Arakaki, CP Osborne, A Bräutigam, RF Sage, JM Hibberd, ... Journal of experimental botany 65 (13), 3609-3621, 2014 | 57 | 2014 |
| The impact of widespread regulatory neofunctionalization on homeolog gene evolution following whole-genome duplication in maize TE Hughes, JA Langdale, S Kelly Genome research 24 (8), 1348-1355, 2014 | 47 | 2014 |
| A modular and optimized single marker system for generating Trypanosoma brucei cell lines expressing T7 RNA polymerase and the tetracycline repressor SK Poon, L Peacock, W Gibson, K Gull, S Kelly Open biology 2 (2), 110037, 2012 | 47 | 2012 |
| RSL class I genes controlled the development of epidermal structures in the common ancestor of land plants H Proust, S Honkanen, VAS Jones, G Morieri, H Prescott, S Kelly, ... Current Biology 26 (1), 93-99, 2016 | 45 | 2016 |
| Comparative life cycle transcriptomics revises Leishmania mexicana genome annotation and links a chromosome duplication with parasitism of vertebrates M Fiebig, S Kelly, E Gluenz PLoS pathogens 11 (10), e1005186, 2015 | 44 | 2015 |
| Evolution of GOLDEN2-LIKE gene function in C3 and C4 plants P Wang, J Fouracre, S Kelly, S Karki, U Gowik, S Aubry, MK Shaw, ... Planta 237 (2), 481-495, 2013 | 43 | 2013 |
| Phytomonas: trypanosomatids adapted to plant environments E Jaskowska, C Butler, G Preston, S Kelly PLoS pathogens 11 (1), e1004484, 2015 | 41 | 2015 |
| Nitric oxide generated by the rice blast fungus Magnaporthe oryzae drives plant infection M Samalova, J Johnson, M Illes, S Kelly, M Fricker, S Gurr New Phytologist 197 (1), 207-222, 2013 | 38 | 2013 |