Publications

August 2018

Bioinformatics, Jonathan Jones Group, Proteomics

Wirthmueller L, Asai S, Rallapalli G, Sklenar J, Fabro G, Kim DS, Lintermann R, Jaspers P, Wrzaczek M, Kangasjärvi J, MacLean D, Menke FLH, Banfield MJ, Jones JDG (2018)

Arabidopsis downy mildew effector HaRxL106 suppresses plant immunity by binding to RADICAL-INDUCED CELL DEATH1. New Phytol. 2018 Oct;220(1):232-248. doi: 10.1111/nph.15277.

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February 2010

Bioinformatics

Daniel MacLean and David J Studholme. (2010)

A boolean model of the pseudomonas syringae hrp regulon predicts a tightly regulated system. PloS ONE, 5(2):e9101.

May 2019

Bioinformatics

MacLean D (2019)

A convolutional neural network for predicting transcriptional regulators of genes in Arabidopsis transcriptome data reveals classification based on positive regulatory interactions. bioRxiv preprint Apr 28, 2019 doi: https://doi.org/10.1101/618926

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August 2009

Bioinformatics

David J Studholme, Selena G Ibanez, Daniel MacLean, Jeffery L Dangl, Jeff H Chang, and John P Rathjen (2009)

A draft genome sequence and functional screen reveals the repertoire of type iii secreted proteins of pseudomonas syringae pathovar tabaci 11528. BMC Genomics, 10(1):395

August 2009

Bioinformatics

Nalvo F Almeida, Shuangchun Yan, Magdalen Lindeberg, David J Studholme, David J Schneider, Bradford Condon, Haijie Liu, Carlos J Viana, Andrew Warren, Clive Evans, et al. (2009)

A draft genome sequence of pseudomonas syringae pv. tomato t1 reveals a type iii effector repertoire sig-nificantly divergent from that of pseudomonas syringae pv. tomato dc3000. Molecular Plant-Microbe Interactions, 22(1):52–62

February 2020

Bioinformatics, Nick Talbot Group

Oses-Ruiz M, Martin-Urdiroz M, Soanes DM, Kershaw MJ, Cruz-Mireles N, Valdovinos-Ponce G, Molinari C, Littlejohn GR, Derbyshire P, Menke F, Valent B, Talbot NJ (2020)

A hierarchical transcriptional network controls appressorium-mediated plant infection by the rice blast fungus Magnaporthe oryzae. bioRxiv preprint Feb 06, 2020 doi: https://doi.org/10.1101/2020.02.05.936203

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April 2016

Bioinformatics, Jonathan Jones Group, The 2Blades Group

Kawashima CG, Guimarães GA, Nogueira SR, MacLean D, Cook DR, Steuernagel B, Baek J, Bouyioukos C, Melo BD, Tristão G, de Oliveira JC, Rauscher G, Mittal S, Panichelli L, Bacot K, Johnson E, Iyer G, Tabor G, Wulff BB, Ward E, Rairdan GJ, Broglie KE, Wu G, van Esse HP, Jones JD, Brommonschenkel SH (2016)

A pigeonpea gene confers resistance to Asian soybean rust in soybean. Nature Biotechnology (2016) doi:10.1038/nbt.3554

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August 2010

Bioinformatics

Sylviane Comparot-Moss, Oliver Kotting, Michaela Stettler, Christoph Edner, Alexander Graf, Sean E Weise, Sebastian Streb, Wei-Ling Lue, Daniel MacLean, Sebastian Mahlow, et al. (2010)

A putative phosphatase, lsf1, is required for normal starch turnover in arabidopsis leaves. Plant Physiology, 152(2):685–697

August 2008

Bioinformatics

Simon Moxon, Frank Schwach, Tamas Dalmay, Dan MacLean, David J Studholme, and Vincent Moulton (2008)

A toolkit for analysing large-scale plant small rna datasets. Bioinformatics, 24(19):2252–2253,

July 2018

Bioinformatics, Jonathan Jones Group

Shrestha RK, Ding P, Jones JDG, MacLean D (2018)

A workflow for simplified analysis of ATAC-cap-seq data in R. GigaScience, 2017, 1–7. DOI: 10.1093/gigascience/giy080

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