Publications

January 2015

Bioinformatics, Cyril Zipfel Group

Etherington GJ, Monaghan J, Zipfel C, MacLean D (2014)

Mapping mutations in plant genomes with the user-friendly web application CandiSNP. Plant Methods 2014, 10:306. doi:10.1186/s13007-014-0041-7

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November 2014

Bioinformatics, Cyril Zipfel Group

Monaghan J, Matschi S, Shorinola O, Rovenich H, Matei A, Segonzac C, Gro Malinovsky F, Rathjen JP, MacLean D, Romeis T, Zipfel C (2014)

The Calcium-Dependent Protein Kinase CPK28 Buffers Plant Immunity and Regulates BIK1 Turnover. Cell Host & Microbe (2014) Volume 16, p605–615. DOI: http://dx.doi.org/10.1016/j.chom.2014.10.007

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October 2014

Bioinformatics

Younsi R and MacLean D (2014)

Using 2k + 2 bubble searches to find Single Nucleotide Polymorphisms in k-mer graphs. Bioinformatics 2014 Oct 24. pii: btu706. [Epub ahead of print]

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September 2014

Bioinformatics

Leggett RM and MacLean D (2014)

Reference-free SNP detection: dealing with the data deluge. BMC Genomics 2014, 15(Suppl 4):S10 doi:10.1186/1471-2164-15-S4-S10

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September 2014

Bioinformatics

Corpas M, Jimenez RC, Bongcam-Rudloff E, Budd A, Brazas MD, Fernandes PL, Gaeta B, van Gelder C, Korpelainen E, Lewitter F, McGrath A, MacLean D, Palagi PM, Rother K, Taylor J, Via A, Watson M, Schneider MV, Attwood TK (2014)

The GOBLET Training Portal: A Global Repository of Bioinformatics Training Materials, Courses and Trainers. Bioinformatics (2014) doi: 10.1093/bioinformatics/btu601

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May 2014

Bioinformatics, Jonathan Jones Group

Ghanasyam Rallapalli, Eric Kemen, Alexandre Robert-Seilaniantz, Cecile Segonzac, Graham Etherington, Kee Sohn, Daniel MacLean, and Jonathan Jones. (2014)

Exprss: an illumina based high-throughput expression-profiling method to reveal transcriptional dynamics. BMC Genomics, 15(1):341

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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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January 2014

Bioinformatics

Dan MacLean. (2014)

Out of the woods. ash dieback and the future of emergent pathogenomics. Molecular Plant Pathology, 15(1):1–4

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October 2013

Bioinformatics, Jonathan Jones Group

Jupe F, Witek K, Verweij W, Sliwka J, Pritchard L, Etherington GJ, Maclean D, Cock PJ, Leggett RM, Bryan GJ, Cardle L, Hein I, Jones JD. (2013)

Resistance gene enrichment sequencing (renseq) enables reannotation of the nb-lrr gene family from sequenced plant genomes and rapid mapping of resistance loci in segregating populations. The Plant Journal, 76(3):530–544

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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