| OrthoFinder: phylogenetic orthology inference for comparative genomics DM Emms, S Kelly Genome biology 20, 1-14, 2019 | 4130 | 2019 |
| OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy DM Emms, S Kelly Genome Biology 16 (1), 1-14, 2015 | 2946 | 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 | 752 | 2016 |
| Exon skipping is correlated with exon circularization S Kelly, C Greenman, PR Cook, A Papantonis Journal of molecular biology 427 (15), 2414-2417, 2015 | 380 | 2015 |
| STAG: species tree inference from all genes D Emms, S Kelly BioRxiv, 267914, 2018 | 253 | 2018 |
| STRIDE: Species Tree Root Inference from Gene Duplication Events DM Emms, S Kelly Molecular Biology and Evolution, msx259, 2017 | 224 | 2017 |
| 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 | 217 | 2007 |
| 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 | 178 | 2014 |
| 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 | 175 | 2014 |
| 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 | 167 | 2016 |
| Clust: automatic extraction of optimal co-expressed gene clusters from gene expression data B Abu-Jamous, S Kelly Genome biology 19 (1), 172, 2018 | 161 | 2018 |
| Reconciling conflicting phylogenies in the origin of sweet potato and dispersal to Polynesia P Muñoz-Rodríguez, T Carruthers, JRI Wood, BRM Williams, K Weitemier, ... Current Biology 28 (8), 1246-1256. e12, 2018 | 156 | 2018 |
| 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 | 143 | 2012 |
| Transcriptome, proteome and draft genome of Euglena gracilis TGE Ebenezer, M Zoltner, A Burrell, A Nenarokova, AMGN Vanclová, ... BMC biology 17 (1), 11, 2019 | 130 | 2019 |
| The mechanism forming the cell surface of tip-growing rooting cells is conserved among land plants S Honkanen, VAS Jones, G Morieri, C Champion, AJ Hetherington, ... Current Biology 26 (23), 3238-3244, 2016 | 130 | 2016 |
| 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 | 125 | 2013 |
| 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 | 116 | 2015 |
| 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 | 116 | 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 | 114 | 2016 |
| 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 | 112 | 2013 |
