Intelligent Data Ecosystems

TitleIntelligent Data Ecosystems
TypeScience Department
InstituteRothamsted Research
HeadChris Baker
Executive AssistantSally Murdoch

Outputs

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Desert island papers-a life in variance parameter and quantitative genetic parameter estimation reviewed using sixteen papers

A - Papers appearing in refereed journals
Thompson, R. 2019. Desert island papers-a life in variance parameter and quantitative genetic parameter estimation reviewed using sixteen papers. Journal of Animal Breeding and Genetics. 136 (4), pp. 230-242. https://doi.org/10.1111/jbg.12400

The contribution of spatial mass effects to plant diversity in arable fields

A - Papers appearing in refereed journals
Metcalfe, H., Hassall, K. L., Boinot, S. and Storkey, J. 2019. The contribution of spatial mass effects to plant diversity in arable fields . Journal of Applied Ecology. 56 (3), pp. 1-15. https://doi.org/10.1111/1365-2664.13414

On the origin of the tensile strength of insect swarms

A - Papers appearing in refereed journals
Reynolds, A. M. 2019. On the origin of the tensile strength of insect swarms. Physical Biology. 16 (4), p. 046002. https://doi.org/10.1088/1478-3975/ab12b9

Effects of soybean oil supplements to diets of lactating dairy cows, on productive performance, and milk fat acids profile: a meta-analysis

A - Papers appearing in refereed journals
Mahdavi, A., Mahdavi, A., Darabighane, B., Mead, A. and Lee, M. R. F. 2019. Effects of soybean oil supplements to diets of lactating dairy cows, on productive performance, and milk fat acids profile: a meta-analysis. Italian Journal of Animal Science. https://doi.org/10.1080/1828051X.2019.1585211

Harmonic radar tracking reveals random dispersal pattern of bumblebee (Bombus terrestris) queens after hibernation

A - Papers appearing in refereed journals
Makinson, J. C., Woodgate, J. L., Reynolds, A. M., Capaldi, E. A., Perry, C. J. and Chittka, L. 2019. Harmonic radar tracking reveals random dispersal pattern of bumblebee (Bombus terrestris) queens after hibernation. Scientific Reports. 9 (4651). https://doi.org/10.1038/s41598-019-40355-6

Yield responses of arable crops to liming - An evaluation of relationships between yields and soil pH from a long-term liming experiment

A - Papers appearing in refereed journals
Holland, J. E., White, P. J., Glendining, M. J., Goulding, K. W. T. and McGrath, S. P. 2019. Yield responses of arable crops to liming - An evaluation of relationships between yields and soil pH from a long-term liming experiment. European Journal of Agronomy. 105 (April), pp. 176-188. https://doi.org/10.1016/j.eja.2019.02.016

ACE: Application for Conditional probability Elicitation

J - Computer programs
Hassall, K. L. 2019. ACE: Application for Conditional probability Elicitation. GitHub Rothamsted Research. https://doi.org/10.5281/zenodo.2563239

Facilitating the elicitation of beliefs for use in Bayesian Belief modelling

A - Papers appearing in refereed journals
Hassall, K. L., Dailey, A. G., Zawadzka, J., Milne, A. E., Harris, J. A., Corstanje, R. and Whitmore, A. P. 2019. Facilitating the elicitation of beliefs for use in Bayesian Belief modelling. Environmental Modelling and Software. 122, p. 104539. https://doi.org/10.1016/j.envsoft.2019.104539

Short-term air temperature forecasting using Nonparametric Functional Data Analysis and SARMA models

A - Papers appearing in refereed journals
Curceac, S., Ternynck, C., Ouarda, T. B. M. J, Chebana, F. and Niang, S. D. 2019. Short-term air temperature forecasting using Nonparametric Functional Data Analysis and SARMA models. Environmental Modelling and Software. 111, pp. 394-408. https://doi.org/10.1016/j.envsoft.2018.09.017

Accounting for data sparsity when forming spatially coherent zones

A - Papers appearing in refereed journals
Hassall, K. L., Whitmore, A. P. and Milne, A. E. 2019. Accounting for data sparsity when forming spatially coherent zones. Applied Mathematical Modelling. 72 (August), pp. 537-552. https://doi.org/10.1016/j.apm.2019.03.030

Calcium Exerts a Strong Influence upon Phosphohydrolase Gene Abundance and Phylogenetic Diversity in Soil

A - Papers appearing in refereed journals
Neal, A. L. and Glendining, M. L. 2019. Calcium Exerts a Strong Influence upon Phosphohydrolase Gene Abundance and Phylogenetic Diversity in Soil. Soil Biology and Biochemistry. 139 (December), p. 107613. https://doi.org/10.1016/j.soilbio.2019.107613

The relationships between seedling root screens, root growth in the field and grain yield for wheat

A - Papers appearing in refereed journals
Bai, C., Ge, Y., Ashton, R. W., Evans, J., Milne, A. E., Hawkesford, M. J., Whalley, W. R., Parry, M. A. J., Melichar, J., Feuerhelm, D., Bansept, P. and Bartsch, M. 2019. The relationships between seedling root screens, root growth in the field and grain yield for wheat . Plant and Soil. https://doi.org/10.1007/s11104-019-04088-9

The challenges of using satellite data sets to assess historical land use change and associated greenhouse gas emissions: a case study of three Indonesian provinces

A - Papers appearing in refereed journals
van Beijma, S., Chatterton, J., Page, S., Rawlings, C. J., Tiffin, R. and King. H. 2018. The challenges of using satellite data sets to assess historical land use change and associated greenhouse gas emissions: a case study of three Indonesian provinces. Carbon Management. 9, pp. 399-413. https://doi.org/10.1080/17583004.2018.1511383

Understanding the Relative Impacts of Climate Change on Crop Production using Data from the Rothamsted Long-Term Experiments

F - Theses
Addy, J. 2018. Understanding the Relative Impacts of Climate Change on Crop Production using Data from the Rothamsted Long-Term Experiments. F - Theses University of Reading CAS

Abstracts of Presentations at ICPP2018: Analysis of Fusarium graminearum pangenome

C1 - Edited contributions to conferences/learned societies
Machado, A., King, R., Urban, M., Del Ponte, E. M., Tessmann, D. J., Kanyuka, K. and Hammond-Kosack, K. E. 2018. Abstracts of Presentations at ICPP2018: Analysis of Fusarium graminearum pangenome. International Congress of Plant Pathology (ICPP) 2018. Boston, USA 29 Jul 2018 American Phytopathological Society (APS). https://doi.org/10.1094/PHYTO-108-10-S1.1

Reemplazo de una pradera permanente y su efecto en el primer año en una lechería comercial

A - Papers appearing in refereed journals
Rivero-Viera, J., Orr, R. J., Coumbe, J., Willson, B., Evans, J. and Lee, M. R. F. 2018. Reemplazo de una pradera permanente y su efecto en el primer año en una lechería comercial . Agro Sur. 46 (1), pp. 3-12. https://doi.org/10.4206/agrosur.2018.v46n1-02

More on midges

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. More on midges. Physics World. 31 (3), pp. 25-25. https://doi.org/10.1088/2058-7058/31

Estimating the variance for heterogeneity in arm-based network meta-analysis

A - Papers appearing in refereed journals
Piepho, H.-P., Madden, L. V., Roger, J., Payne, R. W. and Williams, E. R. 2018. Estimating the variance for heterogeneity in arm-based network meta-analysis. Pharmaceutical Statistics. 17 (3), pp. 264-277. https://doi.org/10.1002/pst.1857

Rothamsted Long-term experiments : guide to the classical and other long-term experiments, datasets and sample archive

E - Books edited/written by staff member, alone/with others
Macdonald, A. J., Poulton, P. R., Clark, I. M., Scott, T., Glendining, M. J., Perryman, S. A. M., Storkey, J., Bell, J. R., Shield, I. F., Mcmillan, V. E. and Hawkins, J. M. B. Macdonald, A. J. (ed.) 2018. Rothamsted Long-term experiments : guide to the classical and other long-term experiments, datasets and sample archive. Rothamsted Research, Harpenden.

The tethered flight technique as a tool for studying life‐history strategies associated with migration in insects

A - Papers appearing in refereed journals
Minter, M., Pearson, A. J., Lim, K. S., Wilson, K., Chapman, J. W. and Jones, C. M. 2018. The tethered flight technique as a tool for studying life‐history strategies associated with migration in insects. Ecological Entomology. 43 (4). https://doi.org/10.1111/een.12521

Loop-mediated isothermal amplification (LAMP) assays for rapid detection of Pyrenopeziza brassicae (light leaf spot of brassicas)

A - Papers appearing in refereed journals
King, K. M., Krivova, V., Canning, G. G. M., Hawkins, N. J., Kaczmarek, A. M., Perryman, S. A. M., Dyer, P. S., Fraaije, B. A. and West, J. S. 2018. Loop-mediated isothermal amplification (LAMP) assays for rapid detection of Pyrenopeziza brassicae (light leaf spot of brassicas). Plant Pathology. 67 (1), pp. 167-174. https://doi.org/10.1111/ppa.12717

Current status and future directions of Levy walk research

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Current status and future directions of Levy walk research. Biology Open. 7 (1), p. bio030106. https://doi.org/10.1242/bio.030106

Fluctuating environments drive insect swarms into a new state that is robust to perturbations

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Fluctuating environments drive insect swarms into a new state that is robust to perturbations. EPL. 124, p. 38001. https://doi.org/10.1209/0295-5075/124/38001

Natural variation in acyl editing is a determinant of seed storage oil composition

A - Papers appearing in refereed journals
Menard, G. N., Bryant, F. M., Kelly, A. A., Craddock, C. P., Lavagi, I., Hassani-Pak, K., Kurup, S. and Eastmond, P. J. 2018. Natural variation in acyl editing is a determinant of seed storage oil composition. Scientific Reports. 8, p. 17346. https://doi.org/10.1038/s41598-018-35136-6

Incorporating terminal velocities into Lagrangian stochastic models of particle dispersal in the atmospheric boundary layer

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Incorporating terminal velocities into Lagrangian stochastic models of particle dispersal in the atmospheric boundary layer. Scientific Reports. 8, p. 16843. https://doi.org/10.1038/s41598-018-34924-4

KnetMaps: a BioJS component to visualize biological knowledge networks

A - Papers appearing in refereed journals
Singh, A., Rawlings, C. J. and Hassani-Pak, K. 2018. KnetMaps: a BioJS component to visualize biological knowledge networks. F1000Research. 7, p. 1651. https://doi.org/10.12688/f1000research.16605.1

Sequence diversity and Identification of novel puroindoline and grain softness protein alleles in Elymus, Agropyron and related species

A - Papers appearing in refereed journals
Wilkinson, M. D., King, R. and Grimaldi, R. 2018. Sequence diversity and Identification of novel puroindoline and grain softness protein alleles in Elymus, Agropyron and related species. Diversity. 10 (4), p. 114. https://doi.org/10.3390/d10040114

Genetic interactions between ABA signalling and the Arg/N-end rule pathway during Arabidopsis seedling establishment

A - Papers appearing in refereed journals
Zhang, H., Gannon, L., Jones, P. D., Rundle, C. A., Hassall, K. L., Gibbs, D. J., Holdsworth, M. J. and Theodoulou, F. L. 2018. Genetic interactions between ABA signalling and the Arg/N-end rule pathway during Arabidopsis seedling establishment. Scientific Reports. 8, p. 15192. https://doi.org/10.1038/s41598-018-33630-5

Olfactory-cued navigation in shearwaters: linking movement patterns to mechanisms

A - Papers appearing in refereed journals
Abolaffio, M., Reynolds, A. M., Cecere, J. G., Paiva, V. H. and Focardi, S. 2018. Olfactory-cued navigation in shearwaters: linking movement patterns to mechanisms. Scientific Reports. 8 (11590). https://doi.org/10.1038/s41598-018-29919-0

Root development impacts on the distribution of phosphatase activity: Improvements in quantification using soil zymography

A - Papers appearing in refereed journals
Giles, C. D., Dupuy, L., Boitt, G., Brown, L. K., Condron, L. M., Darch, T., Blackwell, M. S. A., Menezes-Blackburn, D., Shand, C. A., Stutter, M. I., Lumsdon, D. G., Wendler, R., Cooper, P., Wearing, C., Zhang, H., Haygarth, P. M. and George, T. S. 2018. Root development impacts on the distribution of phosphatase activity: Improvements in quantification using soil zymography. Soil Biology and Biochemistry. 116, pp. 158-166. https://doi.org/10.1016/j.soilbio.2017.08.011

Phosphorus acquisition by citrate- and phytase-exuding Nicotiana tabacum plant mixtures depends on soil phosphorus availability and root intermingling

A - Papers appearing in refereed journals
Giles, C. D., Richardson, A. E., Cade-Menun, B. J., Mezali, M. M., Brown, L. K., Menezes-Blackburn, D., Darch, T., Blackwell, M. S. A., Shand, C. A., Stutter, M. I., Wendler, R., Cooper, P., Lumsdon, D. G., Wearing, C., Zhang, H., Haygarth, P. M. and George, T. S. 2018. Phosphorus acquisition by citrate- and phytase-exuding Nicotiana tabacum plant mixtures depends on soil phosphorus availability and root intermingling. Physiologia Plantarum. 163, pp. 356-371. https://doi.org/10.1111/ppl.12718

The adaptation of Fusarium culmorum to DMI Fungicides Is Mediated by Major Transcriptome Modifications in Response to Azole Fungicide, Including the Overexpression of a PDR Transporter (FcABC1).

A - Papers appearing in refereed journals
Hellin, P., King, R., Urban, M., Hammond-Kosack, K. E. and Legreve, A 2018. The adaptation of Fusarium culmorum to DMI Fungicides Is Mediated by Major Transcriptome Modifications in Response to Azole Fungicide, Including the Overexpression of a PDR Transporter (FcABC1). Frontiers in Microbiology. 9 (1385). https://doi.org/10.3389/fmicb.2018.01385

Towards FAIRer Biological Knowledge Networks Using a Hybrid Linked Data and Graph Database Approach

A - Papers appearing in refereed journals
Brandizi, M., Singh, A., Rawlings, C. J. and Hassani-Pak, K. 2018. Towards FAIRer Biological Knowledge Networks Using a Hybrid Linked Data and Graph Database Approach. Journal of Integrative Bioinformatics. 15 (3), pp. 1-10. https://doi.org/10.1515/jib-2018-0023

Passive particles Lévy walk through turbulence mirroring the diving patterns of marine predators

A - Papers appearing in refereed journals
Reynolds, A. M. 2018. Passive particles Lévy walk through turbulence mirroring the diving patterns of marine predators. Journal of Physics Communications. 2 (8), p. 085003. https://doi.org/10.1088/2399-6528/aad498

New insights in the composition of wax and sterol esters in common and mutant sunflower oils revealed by ESI-MS/MS

A - Papers appearing in refereed journals
Broughton, R., Ruíz-Lopez, N., Hassall, K. L., Martínez-Force, E., Garcés, R., Salas, J. J. and Beaudoin, F. 2018. New insights in the composition of wax and sterol esters in common and mutant sunflower oils revealed by ESI-MS/MS. Food Chemistry. 269, pp. 70-79. https://doi.org/10.1016/j.foodchem.2018.06.135

Organic phosphorus in the terrestrial environment: a perspective on the state of the art and future priorities

A - Papers appearing in refereed journals
George, T. S., Giles, C. D., Menezes-Blackburn, D., Condron, L. M., Gama-Rodrigues, A. C., Jaisi, D., Lang, F., Neal, A. L., Stutter, M. I., Almeida, D. S., Bol, R., Cabugoa, K. G., Celi, L., Cotner, J. B., Feng, G., Goll, D. S., Hallama, M., Krueger, J., Plassard, C., Rosling, A., Darch, T., Fraser, T., Giesler, R., Richardson, A. E., Tamburini, F., Shand, C. A., Lumsdon, D. G., Zhang, H., Blackwell, M. S. A., Wearing, C., Mezeli, M. M., Almas, A. R., Audette, Y., Bertrand, I., Beyhaut, E., Boitt, G., Bradshaw, N., Brearley, C. A., Bruulsema, T. W., Ciais, P., Cozzolino, V., Duran, P. C., Mora, M. L., De Menezes, A. B., Dodd, R. J., Dunfield, K., Engl, C., Frazao, P. C., Garland, G., Gonzalez Jimenez, J. L., Graca, J., Granger, S. J., Harrison, A. F., Heuck, C., Hou, E. Q., Johnes, P. J., Kaiser, K., Kjaer, H. A., Klumpp, E., Lamb, A. L., Macintosh, K .A., Mackay, E. B., McGrath, J., McIntryre, C., McLaren, T., Meszaros, E., Missong, A., Mooshammer, M., Negron, C. P., Nelson, L. A., Pfahler, V., Poblete-Grant, P., Randall, M., Seguel, A., Seth, K., Smith , A. C., Smits, M. M., Sobaro, J. A., Spohn, M., Tawaraya, K., Tibbett, M., Voroney, P., Wallander, H., Wang, L., Wasaki, J. and Haygarth, P. M. 2018. Organic phosphorus in the terrestrial environment: a perspective on the state of the art and future priorities. Plant and Soil. 427 (1-2), pp. 191-208. https://doi.org/10.1007/s11104-017-3391-x

Levy foraging patterns of rural humans

A - Papers appearing in refereed journals
Reynolds, A. M., Ceccon, E., Baldauf, C., Medeiros, T. K. and Miramontes, O. 2018. Levy foraging patterns of rural humans. PLOS ONE. 13 (6), p. e0199099. https://doi.org/10.1371/journal.pone.0199099

Distinguishing between apparent and actual randomness: a preliminary examination with Australian ants

A - Papers appearing in refereed journals
Reynolds, A. M., Ferdous, M. J. and Cheng, K. 2018. Distinguishing between apparent and actual randomness: a preliminary examination with Australian ants. Behavioral Ecology and Sociobiology. 72 (113). https://doi.org/10.1007/s00265-018-2527-1

Inter-genome comparison of the Quorn fungus Fusarium venenatum and the closely related plant infecting pathogen Fusarium graminearum

A - Papers appearing in refereed journals
King, R., Brown, N. A., Urban, M. and Hammond-Kosack, K. E. 2018. Inter-genome comparison of the Quorn fungus Fusarium venenatum and the closely related plant infecting pathogen Fusarium graminearum. BMC Genomics. 19, p. 269. https://doi.org/10.1186/s12864-018-4612-2

The Role of Trehalose 6-Phosphate in Crop Yield and Resilience

A - Papers appearing in refereed journals
Paul, M. J., Gonzalez-Uriarte, A., Griffiths, C. A. and Hassani-Pak, K. 2018. The Role of Trehalose 6-Phosphate in Crop Yield and Resilience. Plant Physiology. 177, pp. 12-23. https://doi.org/10.1104/pp.17.01634

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