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David Marshall

Staff picture: David Marshall
Information and Computational Sciences
Information and Computational Sciences
Honorary Associate
David.Marshall@hutton.ac.uk
+44 (0)1382 568744 (*)

The James Hutton Institute
Invergowrie
Dundee DD2 5DA
Scotland UK

 
  • 2019 - current    Honorary Associate, James Hutton Institute
  • 2011 - 2015    ICS Science Group Leader, James Hutton Institute
  • 2008 - 2009    Associate Programme Leader, Genetics Programme, SCRI 
  • 2005 - 2008    Director Postgraduate Studies, SCRI
  • 2005 - 2009    Bioinformatics Theme Leader, Genetics Programme, SCRI
  • 2000 - 2005    Leader Computational Biology Programme, SCRI
  • 1999 - 2000    Deputy Head Genomics Unit Scottish Crop Research Institute
  • 1997 - 1999    Head of Bioinformatics and IT Unit SCRI.
  • 1995 - 1997    Programme Manager BBSRC Plant and Animal Genome Analysis Initiative
  • 1984 - 1997    Lecturer  Department of Genetics, University of Birmingham
  • 1982 - 1984    NERC Post Doc, Department of Genetics, University of Birmingham
  • 1979 - 1982    Demonstrator, Department of Agricultural Botany, UCW, Aberystwyth

Current research interests

From a background of population genetics and the evolution of plant mating systems my research interests have increasingly focussed on the development of genetic marker technologies and DNA sequence diversity in both crop and wild plants and their deployment in applications from the analysis of the genetic structure of natural and breeding populations of crop plants to genome analysis and comparative genomics. The major focus of my interests has been on genetic marker applications with barley, potatoes, wheat  and soft fruit (blackcurrant and raspberry) in collaboration with Professor Robbie Waugh and other Geneticists at Dundee, in particular, the    design and application of SNP-based genotyping arrays. The original focus was initially from public domain EST sequence resources but with the advent of Next Generation Sequencing technologies this has shifted first to the extensive RNA-seq data that have been developed with colleagues in the ICS and CMS Groups at Dundee and with Dr Andrew Flavell from the University of Dundee. The advent of RNA-seq data is also leading to a step change in the analysis of alternative splicing in plants and we are currently working with Professor John Brown’s group to analyse RNA seq data sets from a range of tissues to identify the extent and significance of transcript diversity in barley.  New sequencing technologies have also enabled Whole Genome shotgun sequencing of our target genomes as well as novel approaches to diversity analysis through Genotyping by Sequencing (GbyS) or Exome Capture and re-sequencing.   The resulting availability of more extensive genome sequence resources is currently underpinning major new developments in the characterisation of key gene families in our target crops.  

Past research

 In the last five years the major achievements of our team has been in a) the development of software tools to support the analysis of genotype and sequence data. Particularly good examples of this are  Flapjack(Milne et al,  2010b)  which has been widely adopted as the graphical genotyping standard by  the international plant breeding and genetics communities and Tablet (Milne et al, 2010b)  which is widely used by researchers  for the visualization of NGS assemblies and mappings. b) The establishment of  genomics resources that have been widely abopted by researchers in our target crops. A key example is the recent development of  barley  9K iSelect genotyping array (Comdran et al., 2012). Finally the translation of  these resources and tools in to  major new advances in our target organisms e.g. (Ramsay et al, 2011)   

Bibliography

  • 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.
  • Marshall, D.F.; Hillman, J.R. (2000) New concepts and approaches to biodiversity., In: Biodiversity. New Leads for the Pharmaceutical and Agrochemical Industries (eds. S.K. Wrigley, M.A. Hayes, R. Thomas, E.J.T. Chrystal and N. Nicholson). Royal Society of Chemistry, Cambridge, pp17-21.

  • Hollingsworth, P.M.; O’Brien, D.; Ennos, R.A.; Yahr, R.; Neaves, L.; Ahrends, A; Ballingall, K.T.; Brooker, R.W.; Burke, T.; Cavers, S.; Dawson, I.K.; Elston, D.A.; Kerr, J.; Marshall, D.F.; Pakeman, R.J.; Trivedi, C.; Wall, E.; Wright, F.; Ogden R. (2020) Scotland's biodiversity progress to 2020 Aichi targets. Conserving genetic diversity - Development of a national approach for addressing Aichi biodiversity target 13 that includes wild species., Scottish Natural Heritage, Inverness, 33pp.
  • Thomas, W.T.B.; Comadran, J.; Ramsay, L.; Shaw, P.; Marshall, D.F.; Newton, A.C.; O'Sullivan, D.; Cockram, J.; Mackay, I.; Bayles, R.; White, J.; Kearsey, M.J.; Luo, Z.; Wang, M.; Tapsell, C.; Harrap, D.; Werner, P.; Klose, S.; Bury, P.; Wroth, J.; Argilllier, O.; Habgood, R.; Glew, M.; Bochard, A-M.; Gymer, P.; Vequaud, D.; Christerson, T.; Allvin, B,; Davies, N.; Broadbent, R.; Brosnan, J.; Bringhurst, T.; Booer, C.; Waugh, R. (2014) Association genetics of UK elite barley (AGOUEB)., Final Project Report to HGCA, No 528, 125pp.
  • Ramsay, L.; Thomas, W.T.B.; Comadran, J.; Marshall, D.F.; Shaw, P.; Waugh, R. (2011) Genetic diversity in modern barley varieties., Annual Report of the Scottish Crop Research Institute for 2010, pp23-24.
  • 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.
  • Ramsay, L.; Rostoks, N.; Marshall, D.F.; Mudie, S.; Close, T.J.; Waugh, R. (2006) Breeding facilitates whole genome LD-mapping., Annual Report of the Scottish Crop Research Institute for 2006, pp16-17.
  • Macaulay, M.; Russell, J.R.; Ramsay, L.; Marshall, D.F.; Powell, W.; Waugh, R.; Thomas, W.T.B. (2004) Lessons from barley recommended lists., Annual Report of the Scottish Crop Research Institute for 2003/2004, pp144-145.
  • Caldwell, D.; McCallum, N.; Mudie, S.; Hedley, P.E.; Ramsay, L.; Liu, H.; Marshall, D.F.; Waugh, R. (2002) A physical/chemical mutation grid for barley functional genomics., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp157-158.
  • Ramsay, L.; Hedley, P.E.; Liu, H.; McCallum, N.; Mudie, S.; Cardle, L.; Harrower, B.E.; Machray, G.C.; Marshall, D.F.; Waugh, R. (2002) Barley transcriptome resources., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp151-152.
  • Cardle, L.; Macaulay, M.; Marshall, D.F.; Milbourne, D.; Ramsay, L.; Waugh, R. (2000) SSR frequency and occurrence in plant genomes., Annual Report of the Scottish Crop Research Institute for 1999/2000, pp108-110.
  • De Jong, W.; Davidson, J.; Bryan, G.J.; Birch, P.R.J.; Waugh, R.; Marshall, D.F. (2000) Gene discovery in potato., Annual Report of the Scottish Crop Research Institute for 1999/2000, pp105-107.
  • Squire, G.R.; Augustin, N.; Bown, J.; Crawford, J.C.; Dunlop, G.; Graham, J.; Hillman, J.R.; Marshall, B.; Marshall, D.F.; Ramsay, G.; Robinson, D.J.; Russell, J.R.; Thompson, C.; Wright, G.M. (1999) Gene flow in the environment: genetic pollution?, Annual Report of the Scottish Crop Research Institute for 1998/99, pp45-54.

  • Mollison, E.M.B.; Barth, S.; Milbourne, D.; Milne, L.; Halpin, C.; McCabe, M.; Creevey, C.; Marshall, D.F. (2014) Genome assembly of perennial ryegrass, Lolium perenne., Agricultural Research Forum 2014, Tullamore Court Hotel, Ireland, 10-11 March 2014.
  • Hornyik, C.; Zhang, R.; Prashar, A.; Marshall, D.F.; Bryan, G.J. (2013) Characterisation of micro RNAs in the tuber bearing crop potato., UK PlantSci 2013, University of Dundee, Dundee, 16-17 April 2013.
  • Shaw, P.; Milne, I.; Cardle, L.; Waugh, R.; Thomas, W.T.B.; Ramsay, L.; Comadran, J.; Stephen G.; Bayer, M.; Graham, M.; Kennedy J.; Oakey, H.; Marshall, D.F. (2012) Visualizing genetic transmission patterns in plant pedigrees., Plant and Animal Genome XX, San Diego, California, 14-18 January 2012.
  • Bayer, M.; Liu, H.; Marshall, D.F.; Russell, J.; Hedley, P.E.; Milne, I.; Stephen G.; Waugh, R.; (2011) A GBS data processing pipeline for barley., StatSeq Meeting on Genotyping by Sequencing. Wageningen, Netherlands, 3-4 November 2011 (Talk).
  • Bayer, M.M.; Russell, J.R.; Milne, L.; Hedley, P.E.; Marshall, D.F. (2010) SNP discovery in barley Illumina data using Mosaik, GigaBayes and Tablet., 2nd Workshop of COST StatSeq Action (TD0801), Ghent, Belgium, 20-21 May 2010.
  • Muehlbauer, G.J.; Waugh, R.; Ramsay, L.; Thomas, W.T.B.; Marshall, D.F.; Newton, A.C. (2010) Potential impacts of a new oat genomics toolbox: Lessons from the barley CAP., Plant & Animal Genome XVIII, San Diego, California, USA, 9-13 January 2010.
  • Cockram, J.; White, J.; Zuluaga, D.; Mackay, I.; Luo, Z.W.; Kearsey, M.J.; Comadran, J.; Marshall, D.F.; Ramsay, L.; Thomas, W.T.B.; Harrap, D.; Werner, P.; Tapsell, C.; Balding, D.J.; Waugh, R.; O'Sullivan, D. (2010) Genome-wide association mapping in barley: From simulations to fine-mapping., Plant & Animal Genome XVIII, San Diego, California, USA, 9-13 January 2010.
  • Shaw, P.; Cardle, L.; Milne, I.; Waugh, R.; Flavell, A.; Thomas, W.T.B.; Grzebyta, J.; Bayer, M.; Marshall, D.F. (2009) Germinate 2: A platform for Illumina SNP genotyping experiments and high volume phenotypic data., Plant & Animal Genome XVII, San Diego, California, 10-14 January 2009.
  • Russell, J.R.; Moragues, M.; Dawson, I.K.; Waugh, R.; Marshall, D.F.; Milne, I.; Grando, S.; Tondelli, A.; Cattivelli, L.; Hubner, S.; Fridman, E.; Flavell, A.J. (2009) Genetic diversity analysis of wild and landrace barleys using the BODA1 Illumina genotyping platform., 19th International Triticeae Mapping Initiative - 3rd COST Tritigen Workshop, Clermont-Ferrand, France, 31 August - 4 September 2009 (Talk).
  • Russell, J.R.; Waugh, R.; Marshall, D.F.; Hayes, P.; Matus, I.; Del Pozo, A.; Close, T.J.; Baum, M.; Grando, S.; Ceccarelli, S. (2009) Genomic dissection of tolerance to drought stress in wild barley., Annual Research Meeting of Generation Challenge Program (CGIAR), Bamako, Mali, 20-23 September 2009 (Talk).
  • Waugh, R.; Marshall, D.F.; Thomas, W.T.B.; Comadran, J.; Russell, J.R.; Close, T.; Stein, N.; Hayes, P.; Muehlbauer, G.; Cockram, J.; O'Sullivan, D.; Mackay, I.; Flavell, A.J.; Ramsay, L. (2009) Whole-genome association mapping in elite inbred crop varieties., OECD Genome Association, Perth, Australia, 9-12 November 2009 (Invited plenary).
  • Waugh, R.; Ramsay, L.; Comadran, J.; Marshall, D.F.; Thomas, W.T.B.; Russell, J.R.; Close, T.; Stein, N.; Hayes, P.; Muehlbauer, G.J.; Cockram, J.; O'Sullivan, D.; Mackay, I.; Flavell, A.J. (2009) Whole-genome scans in elite barley germplasm as a strategy for gene isolation., 19th International Triticeae Mapping Initiative - 3rd COST Tritigen Workshop, Clermont-Ferrand, France, 31 August - 4 September 2009 (Talk).
  • Waugh, R.; Marshall, D.F.; Thomas, W.T.B.; Comadran, J.; Russell, J.R.; Close, T.; Stein, N.; Hayes, P.; Muehlbauer, G.; Cockram, J.; O'Sullivan, D.; Mackay, I.; Ramsay, L. (2009) Whole-genome association mapping in elite inbred crop varieties as a platform for gene discovery., ACPFG Genomics Symposium: The Genomics of Salinity, Adelaide, Australia, 16-18 November 2009 (Invited plenary).
  • Ramsay, L.; Comadran, J.; Thomas, W.T.B.; Marshall, D.F.; Druka, A.; MacKenzie, K.; Bhat, P.; Close, T.J.; Waugh, R. (2008) Barley genomics: Development and application of SNP genotyping., 5th UK Cereal Genetics and Genomics Workshop, Rothamsted, 16-18 April 2008.
  • Waugh, R.; Marshall, D.F.; Druka, A.; Comadran, J.; Russell, J.R.; Chen, X.W.; Thomas, W.T.B.; Close, T.J.; Stein, N.; Ramsay, L. (2008) Genomic dissection of phenotypic variation in barley., BSPP Cereal Pathosystems Conference 2008, Queen Mary, University of London, 16-17 December 2008, p63.
  • Russell, J.R.; Baum, M.; Ceccarelli, S.; Close, T.M.; Grando, S.; Hayes, P.M.; Matus, I.; Marshall, D.F.; Del Poza, A.; von Korff Schmising, M.; Waugh, R. (2008) Genomic dissection of tolerance to drought stress in wild barley., 10th International Barley Genetics Symposium, Alexandria, Egypt, 5-10 April 2008.
  • Waugh, R.; Ramsay, L.; Marshall, D.F.; Kearsey, M.J.; O'Sullivan, D.M.; Tapsell, C.; Klose, S.; Bury, P.; Habgood, R.; Gymer, P.; Christerson, T.; Allvin, B.; Davies, N.; Brosnan, J.; Booer, C.; Thomas, W.T.B. (2008) High density genome scan of progress in UK winter and spring malting barley., 10th International Barley Genetics Symposium, Alexandria, Egypt, 5-10 April 2008.
  • Marshall, D.F.; Close, T.; Ramsay, L.; Druka, A.; Thomas, W.T.B.; Flavell, A.J.; Shaw, P.; Milne, I.; Waugh, R. (2008) Barley genomics and genetic analysis - new trends in barley genomics., 10th International Barley Genetics Symposium, Alexandria, Egypt, 5-10 April 2008.
  • Marshall, D.F.; Waugh, R.; Dicks, J.; Nwankwo, D.; Ellis, N.; Shaw, P.; Barnard, V.; Ambrose, M.; Flavell, A.J. (2008) New developments in the germinate project., Plant & Animal Genome XVI, San Diego, CA, 12-16 January 2008, 311 (Abstract).
  • Russell, J.R.; Baum, M.; Ceccarelli, S.; Close, T.M.; Grando, S.; Hayes, P.; Matus, I.; Marshall, D.F.; Del Poza, A.; von Korff Schmising, M.; Waugh, R. (2007) Genomic dissection of tolerance to drought stress in wild barley., Generation Challenge Programme Annual Research Meeting, South Africa, 12-16 September 2007.
  • Rostoks, N.; Mudie, S.; Bonar, N.; Cardle, L.; Marshall, D.F.; Waugh, R. (2007) SNP and haplotype diversity in coding and non-coding regions of European spring and winter barley., II International Vavilov Conference Crop Genetic Resources in the 21st Century, St Petersburg, Russia, 26-30 November 2007.
  • Waugh, R.; Rostoks, N.; Ramsay, L.; Druka, A.; Marshall, D.F.; Close, T.; Wanamaker, S.; Svensson, J.T.; Bhat, P.; Roose, M.L.; Hayes, P.; Stein, N. (2007) Barley genomics and its impact on breeding., 13th Australian Barley Technical Symposium, Fremantle, Australia, 26-30 August 2008.
  • Waugh, R.; Rostoks, N.; Ramsay, L.; Marshall, D.F.; Thomas, W.T.B.; Druka, A.; Wanamaker, S.; Svensson, J.T.; Bhat, P.; Graner, A.; Stein, N.; Varshney, R.K.; Kearsey, M.J.; Luo, Z.W.; Potokina, E.; Close, T.J. (2006) Towards whole genome association genetic scans in barley., Eucarpia Cereals Meeting, Lleida, Spain, 14-17 November 2006.
  • Rostoks, N.; Mudie, S.; Bonar, N.; Cardle, L.; Marshall, D.F.; Waugh, R. (2005) Single nucleotide polymorphism discovery and mapping in barley., Plant & Animal Genome Conference (PAG) XIII, San Diego, California, 15-19 January 2005.
  • Marshall, D.F.; Shaw, P.; Cardle, L. (2005) The plant genomics database infrastructure at the Scottish Crop Research Institute., Plant & Animal Genome XII, San Diego, California, 15-19 January 2005 (Abstract).
  • Liu, J.; Fernie, A.R.; Marshall, D.F. (2005) Determination of in vivo non-steady-state fluxes and kinetic information using stable isotope labeling and metabolite pool size data., Systems Biology: from Molecules and Modeling to Cells, 1st FEBS Advanced Lectures, Cosau, Austria, 12-18 March 2005.
  • Rostoks, N.; Cardle, L.; Mudie, S.; Svensson, J.T.; Walia, H.; Rodriguez, E.M.; Wanamaker, S.; Hedley, P.E.; Liu, H.; Ramsay, L.; Russell, J.R.; Close, T.J.; Marshall, D.F.; Waugh, R. (2004) Single nucleotide polymorphism mapping of the barley genes involved in abiotic stresses., Barley Genetics IX, Proceedings of 9th International Barley Genetics Symposium, Brno, Czech Republic, 20-26 June 2004.
  • Ramsay, L.; Macaulay, M.; Thomas, W.T.B.; Druka, A.; Marshall, D.F.; Waugh, R. (2004) The semi-dwarfing gene sdw1 in European spring barley., Barley Genetics IX, Proceedings of 9th International Barley Genetics Symposium, Brno, Czech Republic, 20-26 June 2004, 321-325.
  • Waugh, R.; Caldwell, D.; Rostoks, N.; Druka, A.; Druka, I.; Marshall, D.F.; Muehlbauer, G.J.; Russell, J.R.; Ramsay, L. (2004) Current perspectives in barley genomics (2004)., Czech Journal of Genetics and Plant Breeding.
  • Ibrahim, A.F.M.; Hedley, P.E.; Cardle, L.; Kruger, W.; Marshall, D.F.; Muehlbauer, G.J.; Waugh, R. (2004) A comparative study of sage and microarray analysis in transcript profiling in barley., Plant & Animal Genome XII, San Diego, 10-14 January 2004, 120.

  • Baker, K.; Bayer, M.; Cook, N.; Dreissig, S.; Dhillon, T.; Russell, J.; Hedley, P.; Morris, J.; Colas, I.; Waugh, R.; Steffenson, B.; Milne, I.; Stephen, G.; Marshall, D.; Flavell, A.J. (2014) The peri-centromeric heterochromatin of barley is a permissive environment for gene diversity, expression and evolution., Plant and Animal Genome XXII, San Diego, California, USA, 12-16 January 2014.
  • Shaw, P.D.; Kennedy, J.; Graham, M.; Milne, I.; Marshall, D.F. (2014) Evaluation of Helium: Visualization of large scale plant pedigrees., BiVi (Biological Visualization) 1st Annual Meeting, Edinburgh Napier University, Edinburgh, 16-17 December 2014.
  • Zhang, R.; Liney M.; Marshall, D.; Dalmay, T.; Bryan, G.J.; Hornyik, C. (2014) The micro RNA transcriptome change during tuberization in potato., Post-transcriptional Gene Expression Regulation in Plants, Poznan, Poland, 30 June - 2 July 2014.
  • Stephen, G.; Milne, I.; Bayer, M.; Shaw, P.D.; Raubach, S.; Hearne, S.; Singh, S.; Wenzl, P.; Marshall, D. (2014) Graphical applications for visualizing and analysing genotype data sets., VizBi 2014, 2nd EMBO Conference on Visualizing Biological Data, EML-Heidelberg, Germany, 5-7 March 2014.
  • Milne, I.; Stephen, G.; Bayer, M.; Shaw, P.D.; Raubach, S.; Hearne, S.; Singh, S.; Wenzl, P.; Marshall, D. (2014) Graphical applications for visualizing and analysing genotype data sets., International Plant and Animal Genome XXII, San Diego, CA, USA, 11-15 January 2014.
  • Shaw, P.D.; Raubach, S.; Milne, I.; Stephen, G.; Wenzl, P.; Hearne, S.; Singh,; Marshall, D.F. (2014) Germinate: Wheat and maize databases for the Seeds of Discovery Project., International Plant and Animal Genome XXII Conference, San Diego, California, 11-15 January 2014.
  • Pritchard, L.; Bayer, M.; Cock, P.; Flores, P.; Jones, S.; Milne, I.; Shaw, P.; Marshall, D. (2014) James Hutton Institute Bioinformatics Grouping., Data Science Research Day, University of Edinburgh, 12 September 2014.
  • Shaw, P.; Thomas, B.; Ramsay, L.; Waugh, R.; Comadran, J.; Stephen, G.; Milne, I.; Graham, M.; Kennedy, J.; Marshall, D. (2013) Visualizing genetic transmission patterns in plant pedigrees., Plant and Animal Genome XXI, San Diego, CA, USA, 12-16 January 2013, P0974.
  • Milne, I.; Stephen, G.; Bayer, M.; Cardle, L.; Shaw, P.; Marshall, D. (2013) Optimisation of SNP and alternative splicing discovery using the Tablet NGS viewer., Plant and Animal Genome XXI, San Diego, CA, USA, 12-16 January 2013, P0971.
  • Wenzl, P.; Baum, M.; Bonnett, D.; Braun, H.; Brennan, P.; Buckler, E.S.; Byurgeno, J.; Chen, C.; Christen, J.A.; Cibrian, A.; Cortes Cruz, M.; Gamboa, S.C.; Costich, D.; Crossa, J.; de la Cruz Larios, L.; Duveiller, E.; Edmeades, G.; El-Bouhssini, M.; Banda, A.E.; Lopez, P.; Franco, J.; Davila, G.F.; Castillo, G.G.; Lopez, J.H.G.; Montiel, N.; Ceniceros, F.; Hearne, S.; Casillas, J.; Muela, V.; Moreno, J.; Killan, A.; Li, H.; Lopes, M.; Mahuku, G.; Juarez, F.; Marshall, D.; Milne, I. et al. (2013) Seeds of discovery: unlocking the genetic potential of maize and wheat genetic resources., Plant and Animal Genome XXI, San Diego, CA, USA, 12-16 January 2013, P0768.
  • Zhang, R.; Burton, R.; Hedley, P.E.; Morris, J.; Fincher, G.; Marshall, D.F.; Waugh, R. (2012) Network analysis of genes expressed in endosperm during barley grain development., Plant and Animal Genome XX. San Diego, California, 14-18 January 2012 (Poster).
  • Thomas, W.T.B.; Comadran, J.; Ramsay, L.; Shaw, P.; Marshall, D.F.; Newton, A.C.; O'Sullivan, D.; Cockram, J.; Mackay, I.; Bayles, R.; Whitehead, C.; Bringhurst, T.; Brosnan, J.; Waugh, R. (2012) QTL controlling malting quality in UK barley., Molecular Mapping and Marker Assisted Selection, VetMed University, Vienna, Austria, 2 August 2012, No. 21 (Abstract).
  • Thomas, W.T.B.; Comadran, J.; Ramsay, L.; Shaw, P.; Marshall, D.F.; Newton, A.C.; O'Sullivan, D.; Cockram, J.; Mackay, I.; Bayles, R.; White, J.; Bringhurst, T.; Brosnan, J.; Waugh, R. (2012) Association genetics studies of progress in the development of UK elite malting barley., 11th International Barley Genetics Symposium, Hangzhou, China, 15-20 April 2012, No. 80 (Abstract).
  • Shaw, P.; Kennedy J.; Milne, I.; Graham, M.; Marshall, D.F. (2012) Using a mathematical graph framework for visualization of inheritance patterns in commercial plant pedigrees., BioVis - 2nd IEEE Symposium on Biological Data Visualisation. Seattle, USA, 14-15 October 2012 (Poster).
  • Hornyik, C.; Zhang, R.; Marshall, D.F.; Bryan, G.J. (2012) Exploring the miRNA transcriptome of a tuber bearing crop, potato., EMBO/EMBL Symposium: The Complex Life of mRNA, Heidelberg, Germany, 7-10 October 2012 (Poster).
  • Thomas, W.T.B.; Comadran, J.; Ramsay, L.; Shaw, P.; Marshall, D.; Newton, A.C.; O'Sullivan, D.; Cockram, J.; Mackay, I.; Bayles, R.; White, J.; Waugh, R.; AGOUEB Consortium. (2011) Detecting and mapping loci for disease resistance in UK elite barley cultivars., Fourth International Workshop on Barley Leaf Blights, West Park Centre, Dundee, 27-29 June 2011.
  • Thomas, W.T.B.; Comadran, J.; Ramsay, L.; Shaw, P.; Marshall, D.F.; Newton, A.C.; O'Sullivan, D.; Cockram, J.; Mackay, I.; Bayles, R.; White, J.; Bringhurst, T.; Brosnan, J.; Waugh, R.; (2011) Recent progress in the genetics of malting barley., World Distilled Spirits Conference Hilton hotel, Glasgow, 8-11 September 2011 (Abstract).
  • Thomas, W.T.B.; Comadran, J.; Ramsay, L.; Shaw, P.; Marshall, D.F.; Newton, A.C.; O'Sullivan, D.; Cockram, J.; Mackay, I.; Bayles, R.; White, J.; Waugh, R.; (2011) Detecting and mapping breeding progress in UK elite barley cultivars., North American Barley Researchers Workshop, Corvallis, USA, 6-8 June 2011 (Abstract).
  • Shaw, P.; Milne, I.; Cardle, L.; Waugh, R.; Flavell, A.J.; Stephen, G.; Bayer, M.; Graham, M.; Kennedy, J.; Marshall, D.F. (2011) Germinate 2 - Storage, visualization and analysis of high volume genotypic, phenotypic and pedigree data., Plant and Animal Genome XIX, San Diego, California, USA, 15-19 January 2011. (Poster)
  • Flavell, A.J.; Xu, X.; Comadran, J.; Thomas, W.T.B.; Marshall, D.F.; Waugh, R.; Russell, J.R.; Ho, T. (2011) Focussed association genetics scanning for yield-related traits in barley., Plant and Animal Genome XIX, San Diego, California, USA, 15-19 January 2011. (Poster)

Scientific Posters / Conferences

AttachmentSize
File Arabidopsis Databases at the Scottish Crop Research Institute (SCRI) 889.25 KB
File Barley SNP Databases and GVT 2.05 MB
File The Plant Genomics Database Infrastructure at the Scottish Crop Research Institute 424.92 KB
File An update on the GERMINATE project the database and tools 791.72 KB
File The Genotype Visualisation Tool (GVT) 1.07 MB
File Germinate: A Database for Plant Genetic Resources 1.86 MB
File Determination of non-steady-state fluxes and kinetic information using stable isotope labelling and metabolite pool size data: theory and application 212.02 KB
File The Visualization and Analysis of Barley SNPs 817.23 KB
File Barley Mutant and SNP Databases at SCRI 993.59 KB
File The Plant Genomics Database Infrastructure at the Scottish Crop Research Institute 213.29 KB
File Single nucleotide polymorphism discovery and mapping in barley 4.01 MB
File Genome-wide SNP discovery and linkage analysis in barley based on genes responsive to abiotic stress 4.63 MB
File Germinate 2 A Platform for Storage and Analysis of Experimental Plant Data 4.72 MB
File Association Genetics of UK Elite Barley 877.79 KB
File Germinate CPC
The Commonwealth Potato Collection database at SCRI
5.3 MB
File Hordeum Relator a visualization tool for relating unigene datasets 217.57 KB
File Hordeum Relator: a visualization tool for relating unigene datasets 210.52 KB
File Bioinformatics Resources at the Scottish Crop Research Institute 1.58 MB
File Germinate 2: Storage Visualization and Analysis of High Volume Genotypic Phenotypic and Pedigree Data 992.31 KB
File Integration of Experimental Plant Data to Develop Novel Visualizations for Genetic Analysis of Quantitative Traits 1.41 MB
File Tablet Flapjack CurlyWhirly and Strudel : SCRI Visualization Tools To Support SNP Discovery 4.74 MB
File Association Genetics of UK Elite Barley (AGOUEB) 429.19 KB
File Flapjack 4.15 MB
File Steptoe x Morex - the weakest link? 1.11 MB

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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.