Publications

April 2014

Bioinformatics, Sophien Kamoun Group

Saunders, D., Yoshida, K., Sambles, C., Glover, R., Clavijo, B., Corpas, M., Bunting, D., Dong, S., Clark, M., Swarbreck, D., Ayling, S., Bashton, M., Collin, S., Hosoya, T., Edwards, A., Crossman, L., Etherington, G., Win, J., Cano, L., Studholme, D., Downie, J.A., Caccamo, M., Kamoun, S., and MacLean, D. (2014)

Crowdsourced analysis of ash and ash dieback through the Open Ash Dieback project: A year 1 report on datasets and analyses contributed by a self-organising community. bioRxiv, 5:98.

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October 2013

Bioinformatics, Sophien Kamoun Group

Kosugi, S., Natsume, S., Yoshida, K., MacLean, D., Cano, L., Kamoun, S., and Terauchi, R. 2013.

Coval: Improving alignment quality and variant calling accuracy for next-generation sequencing data. PLOS ONE, 8:e75402.

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March 2008

Bioinformatics

Daniel MacLean, Cheryl A Jerome, Anthony PC Brown, and John C Gray. (2008)

Co-regulation of nuclear genes encoding plastid ribosomal proteins by light and plastid signals during seedling development in tobacco and arabidopsis. Plant Molecular Biology, 66(5):475–490

August 2013

Bioinformatics

Dan MacLean. (2013)

Changing the rules of the game. eLife, 2

March 2016

Bioinformatics

Page M, MacLean D, Schudoma C (2016)

blastjs: a BLAST+ wrapper for Node.js. BMC Research Notes (2016) 9:130 doi: 10.1186/s13104-016-1938-1

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July 2012

Bioinformatics

GJ Etherington and D MacLean. (2012)

Bioinformatik-analyse von next generation-sequenzierungsdaten. BIOforum-Forschung und Entwicklung, 35(1):34

January 2009

Bioinformatics

Dan MacLean and David J Studholme (2009)

Bioinformatics aspects of high-throughput sequencing technology. In Plant Pathogenic Bacteria: Genomics and Molecular Biology, page 311. Horizon Scientific Press

February 2012

Bioinformatics

Raoul JP Bonnal, Jan Aerts, George Githinji, Naohisa Goto, Dan MacLean, Chase A Miller, Hiroyuki Mishima, Massimiliano Pagani, Ricardo Ramirez-Gonzalez, Geert Smant, et al. (2012)

Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics. Bioinformatics, 28(7):1035–1037

May 2012

Bioinformatics

Ricardo Ramirez-Gonzalez, Raoul JP Bonnal, Mario Caccamo, Daniel MacLean, et al. (2012)

Bio-samtools: Ruby bindings for samtools, a library for accessing bam files containing high-throughput sequence alignments. Source Code for Biology and Medicine, 7(6),

March 2015

Bioinformatics

Etherington GJ, Ricardo H. Ramirez-Gonzalez RH, MacLean D (2015)

bio-samtools 2: a package for analysis and visualization of sequence and alignment data with SAMtools in Ruby. Bioinformatics (2015) doi: 10.1093/bioinformatics/btv178

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