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Micha Bayer

Staff picture: Micha Bayer
Information and Computational Sciences
Information and Computational Sciences
Bioinformatics Specialist
+44 (0)344 928 5428 (*)

The James Hutton Institute
Dundee DD2 5DA
Scotland UK

  • Bioinformatics Specialist, Information and Computational Sciences group
  • Specialises in analysis of Next Generation Sequencing data from crop plants
  • Main focus: genomics and variomics (in particular in barley)

Current research interests

Nature cover 2017Over the years I have been involved in a large variety of projects across most of our crop plant species, but most of my research currently relates to barley. My particular interest is in barley variomics and genomics. I have been actively involved in the last two barley genome projects, and also in the development of the last two barley high throughout genotyping platforms. I have an active interest in the quality issues Next Generation Sequencing data and its analysis suffer from, and as part of this I recently supervised a PhD project looking at the generation of false positive SNPs during variant calling. Due to the high demand for bioinformatics analysis skills, I now also spend a substantial amount of my time teaching, supervising and mentoring both staff and students. I have been involved in delivering bioinformatics training courses both internationally and locally, at the James Hutton Institute and University of Dundee.

Past research

  • May2008 - present: Bioinformatics Specialist, The James Hutton Institute (prev. SCRI)
  • March 2006 - May2008: Software Developer, Scottish Bioinformatics Research Network (SBRN), SCRI
  • September 2003 – February 2006: Grid Developer, National e-Science Centre (Glasgow Hub), University of Glasgow
  • September 2002 - September 2003: MSc Information Technology, Glasgow University
  • July 1998 – August 2002: Postdoctoral Researcher, Royal Botanic Garden Edinburgh (species identification of algae by computer vision)
  • February 1998 – June 1998: Postdoctoral Research Fellow, Gatty Marine Laboratory, St Andrews University (development of microsatellites for population genetics in marine invertebrates)
  • June 1994 – January 1998: PhD Marine Biology, St Andrews University (phenotypic plasticity in marine bryozoans)


  • Bayer, M.; Morris, J.; Booth, C.; Booth, A.; Uzrek, N.; Russell, J.R.; Waugh, R.; Hedley, P.E. (2019) Exome capture for variant discovery and analysis in barley., In: Harwood, W.A. (ed.). Barley: Methods and Protocols. Methods in Molecular Biology, Humana Press, New York, Volume 1900, Chapter 18, pp283-310.
  • Simpson, C.G.; Barrero, R.A.; Bayer, M.; Flavell, A.; Rapazote-Flores, P.; Bellgard, M.I.; Hedley, P.E.; Zhang, R.; Waugh, R. (2018) The expressed portion of the barley genome., In: Stein, N. & Muehlbauer, G. (eds.). The Barley Genome, Compendium of Plant Genomes. Springer, Cham, Switzerland, Chapter 7, 789-107.
  • Twardziok, S.; Gundlach, H.; Hedley, P.E.; Bayer, M.; Platzer, M.; Groth, M.; Waugh, R.; Spannagl, M. (2018) Gene prediction in the barley genome., In: Stein, N. & Muehlbauer, G. (eds.). The Barley Genome, Compendium of Plant Genomes. Springer, Cham, Switzerland, Chapter 6, 73-88.
  • Milne, I.; Bayer, M.; Stephen, G.; Cardle, L.; Marshall, D. (2016) Tablet: visualizing next-generation sequence assemblies and mappings., In: Edwards, D. (ed.). Plant Bioinformatics: Methods and Protocols, Methods in Molecular Biology. Springer Science+Business Media, New York, 14, pp253-268.

  • Milne, I.; Shaw, P.; Milne, L.; Bayer, M.; Stephen, G.; Marshall, D.F. (2010) Visualising genetic diversity., Annual Report of the Scottish Crop Research Institute for 2009, pp21-22.

Printed from /staff/micha-bayer on 14/04/21 09:53:15 AM

The James Hutton Research Institute is the result of the merger in April 2011 of MLURI and SCRI. This merger formed a new powerhouse for research into food, land use, and climate change.