Research output per year
Research output per year
- 47 results
Search results
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2024
Therapeutic window for treatment of prion disease defined by timed depletion of Prion protein
Bradford, B., Marshall, A., Tuzi, N., Brown, D., Kisielewski, D., Summers, K., Perry, H., Piccardo, P., Clarke, A. & Manson, J. C., 18 Nov 2024, (E-pub ahead of print) bioRxiv.Research output: Working paper › Preprint
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HoloSimR: a comprehensive framework for simulating breeding programs including the hologenome scenario
Casto-Rebollo, C., Pocrnic, I., Gorjanc, G. & Ibáñez-Escriche, N., 8 Nov 2024, Research Square , p. 1-26, 26 p.Research output: Working paper › Preprint
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Early changes in the gut microbiome among HIV-infected Individuals in Uganda initiating daily TMP/SMX
Atugonza, C., Muwonge, A., Najjuka, C. F., Kateete, D. P., Katagirya, E., Mwesigwa, S. & Asiimwe, B., 7 Oct 2024, (E-pub ahead of print) medRxiv, p. 1-20, 20 p. (medrXiv).Research output: Working paper › Preprint
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Mosquitoes reared in distinct insectaries within an institution in close spatial proximity possess significantly divergent microbiomes
Brettell, L. E., Hoque, A. F., Joseph, T. S., Dhokiya, V., Hornett, E. A., Hughes, G. L. & Heinz, E., 29 Aug 2024, (E-pub ahead of print) bioRxiv, p. 1-29, 29 p. (bioRxiv : the preprint server for biology).Research output: Working paper › Preprint
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Investigative power of Genomic Informational Field Theory (GIFT) relative to GWAS for genotype-phenotype mapping
Kyratzi, P., Matika, O., Brassington, A. H., Connie, C. E., Xu, J., Barrett, D. A., Emes, R. D., Archibald, A. L., Paldi, A., Sinclair, K. D., Wattis, J. & Rauch, C., 13 Aug 2024, bioRxiv, p. 1-27, 27 p. (bioRxiv).Research output: Working paper › Preprint
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An emerging PB2-627 polymorphism increases the pandemic potential of avian influenza virus by breaking through ANP32 host restriction in mammalian and avian hosts
Guo, Y., Shu, S., Zhou, Y., Peng, W., Jiang, Z., Li, Y., Li, T., Du, F., Dong, J., Zhao, C., Wang, M. H., Sun, Y., Sun, H., Lu, L., Digard, P., Chang, K., Wang, L., Chen, X., Liu, J. & Pu, J., 26 Jul 2024, (E-pub ahead of print) bioRxiv, p. 1-39, 39 p.Research output: Working paper › Preprint
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Deep Learning-based Modeling for Preclinical Drug Safety Assessment
Jaume, G., de Brot, S., Song, A. H., Williamson, D. F. K., Oldenburg, L., Zhang, A., Chen, R. J., Asin, J., Blatter, S., Dettwiler, M., Goepfert, C., Grau-Roma, L., Soto, S., Keller, S. M., Rottenberg, S., Del-Pozo, J., Pettit, R., Le, L. P. & Mahmood, F., 23 Jul 2024, bioRxiv, at Cold Spring Harbor Laboratory, p. 1-49, 49 p. (bioRxiv : the preprint server for biology).Research output: Working paper › Preprint
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Reviving the Desired Gains Index: An optimal solution for parent selection in public plant breeding programs
Werner, C. R., Gardner, K. A. & Tolhurst, D. J., 23 Jul 2024, bioRxiv, p. 1-23, 23 p.Research output: Working paper › Preprint
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Genomic insights into red squirrels in Scotland reveals loss of heterozygosity associated with extreme founder effects
Marr, M. M., Humble, E., Lurz, P., Wilson, L. A., Milne, E., Beckmann, K. M., Schoenebeck, J., Fung, U. Y. Y., Kitchener, A., Kortland, K., Edwards, C. & Ogden, R., 13 Jul 2024, bioRxiv, p. 1-44, 44 p.Research output: Working paper › Preprint
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The effect of a dominant kinase-dead Csf1r mutation associated with adult-onset leukoencephalopathy on brain development and neuropathology
Stables, J., Pal, R., Bradford, B., Carter-Cusack, D., Taylor, I., Pridans, C., Khan, N., Woodruff, T., Irvine, K., Summers, K. M., Mabbott, N. & Hume, D. A., 13 Jun 2024, bioRxiv, p. 1-55, 55 p.Research output: Working paper › Preprint
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The principles of expected and realised genetic relatedness among individual honeybees
Strachan, L., Bubnič, J., Petersen, G., Gorjanc, G. & Obsteter, J., 31 May 2024, bioRxiv.Research output: Working paper › Preprint
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Accurate determination of breed origin of alleles in a simulated smallholder crossbred dairy cattle population
Welderufael, B., houaga, I., Gaynor, C., Gorjanc, G. & Hickey, J., 15 Apr 2024, (E-pub ahead of print) bioRxiv.Research output: Working paper › Preprint
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Pulses of Class I PI3kinase activity identify the release and recapture of prey from neutrophil phagosomes
Muir, C., Reyes-Aldasoro, C. C., Ellett, F. E., Prajsnar, T. K., Ho, Y. X., Bernut, A., Loynes, C. A., Elworthy, S., Bowden, K. A., Cadbury, A. J., Prince, L. R., King, J. S., Condliffe, A. M. & Renshaw, S. A., 29 Feb 2024, p. 1-33, 33 p. (bioRxiv).Research output: Working paper › Preprint
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A framework for simulating genotype by environment interaction using multiplicative models
Bančič, J., Gorjanc, G. & Tolhurst, D., 29 Jan 2024, Research Square .Research output: Working paper › Preprint
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Unlocking genome-based prediction and selection in conifers: the key role of within-family prediction accuracy
Papin, V., Gorjanc, G., Pocrnic, I., Bouffier, L. & Sanchez, L., 29 Jan 2024, bioRxiv.Research output: Working paper › Preprint
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2023
Plant breeding simulations with AlphaSimR
Bančič, J., Greenspoon, P., Gaynor, C. R. & Gorjanc, G., 30 Dec 2023, bioRxiv.Research output: Working paper › Preprint
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Mitochondrial dysfunction and mitophagy blockade contribute to renal osteodystrophy in chronic kidney disease-mineral bone disorder
Hsu, S-N., Stephen, L. A., Phadwal, K., Dillon, S., Carter, R., Morton, N. M., Luijten, I., Emelianova, K., Amin, A. K., Macrae, V. E., Freeman, T. C., Staines, K. A. & Farquharson, C., 26 Dec 2023, bioRxiv, p. 1-60, 60 p.Research output: Working paper › Preprint
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Predictive phage therapy for Escherichia coli urinary tract infections: cocktail selection for therapy based on machine learning models
Keith, M., Torriente, A. P. D. L., Chalka, A., Vallejo-Trujillo, A., McAteer, S. P., Paterson, G. K., Low, A. S. & Gally, D. L., 23 Nov 2023, bioRxiv, p. 1-21, 21 p.Research output: Working paper › Preprint
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Accounting for nuclear and mito genome in dairy cattle breeding - a simulation study
Mafra Fortuna, G., Zumbach, B., Johnsson, M., Pocrnic, I. & Gorjanc, G., 21 Nov 2023, bioRxiv, p. 1, 8 p.Research output: Working paper › Preprint
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Mapping Rangeland Health Indicators in East Africa from 2000 to 2022
Soto, G. E., Wilcox, S., Clark, P. E., Fava, F. P., Jensen, N. D., Kahiu, N., Liao, C., Porter, B., Sun, Y. & Barrett, C., 20 Nov 2023, (E-pub ahead of print) Earth System Science Data.Research output: Working paper › Preprint
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Structural variants and short tandem repeats impact gene expression and splicing in bovine testis tissue
Bhati, M., Mapel, X. M., Lloret-Villas, A. & Pausch, H., 7 Jun 2023, bioRxiv, at Cold Spring Harbor Laboratory.Research output: Working paper › Preprint
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Fetally-encoded GDF15 and maternal GDF15 sensitivity are major determinants of nausea and vomiting in human pregnancy
Fejzo, M., Rocha, N., Cimino, I., Lockhart, S. M., Petry, C., Kay, R. G., Burling, K., Barker, P., George, A. L., Yasara, N., Premawardhena, A., Gong, S., Cook, E., Rainbow, K., Withers, D. J., Cortessis, V., Mullin, P. M., MacGibbon, K. W., Jin, E., Kam, A., & 22 others, 4 Jun 2023, bioRxiv.Research output: Working paper › Preprint
Open Access -
Open Institute of the African BioGenome Project: Bridging the gap in African biodiversity genomics and bioinformatics
Sharaf, A., Ndiribe, C. C., Omotoriogun, T. C., Abueg, L., Badaou, B., Markey, F. J. B., Beedessee, G., Diouf, D., Duru, V. C., Ebuzome, C., Eziuzo, S. C., Jaufeerally Fakim, Y., Formenti, G., Ghanm, N., Guerfali, F. Z., Houaga, I., Ideozu, J. E., Katee, S. M., Khayi, S., Kuja, J. O., & 15 others, 30 May 2023, (E-pub ahead of print) OSF Preprints, p. 1-18, 18 p.Research output: Working paper › Preprint
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Cellular heterogeneity of the developing worker honey bee (Apis mellifera) pupa: a single cell transcriptomics analysis
Patir, A., Raper, A., Fleming, R., Henderson, B. EP., Murphy, L., Henderson, N. C., Clark, E., Freeman, T. C. & Barnett, M. W., 24 Mar 2023, bioRxiv.Research output: Working paper › Preprint
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Gentrification and Food Environments: A Rapid Evidence Assessment
Gie, S. & Borthwick, F., 7 Mar 2023, (E-pub ahead of print) medRxiv, p. 1-24, 23 p.Research output: Working paper › Preprint
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Phenome-wide analysis identifies parent-of-origin effects on the human methylome associated with changes in the rate of aging
Gao, C., Amador, C., Walker, R. M., Campbell, A., Madden, R. A., Adams, M. J., Bai, X., Liu, Y., Li, M., Hayward, C., Porteous, D. J., Shen, X., Evans, K. L., Haley, C. S., McIntosh, A. M., Navarro, P. & Zeng, Y., 20 Jan 2023, bioRxiv.Research output: Working paper › Preprint
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2022
The benefits and perils of import in small cattle breeding programs
Obsteter, J., Jenko, J., Pocrnic, I. & Gorjanc, G., 12 Dec 2022, (E-pub ahead of print) bioRxiv, at Cold Spring Harbor Laboratory.Research output: Working paper › Preprint
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Developing best practices for genotyping-by-sequencing analysis using linkage maps as benchmarks
Taniguti, C., Taniguti, L., Amadeu, R., Mollinari, M., Pereira, G., Riera-Lizarazu, O., Lau, J., Byrne, D., Gesteira, G., De Paula Oliveira, T., Ferreira, G. & Garcia, A., 25 Nov 2022, Cold Spring Publishing LLC, p. 1-24, 24 p. (bioRxiv).Research output: Working paper › Preprint
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West Nile Virus spread in Europe - phylogeographic pattern analysis and key drivers
Lu, L., Zhang, F., Oude Munnink, B., Munger, E., Sikkema, R., Pappa, S., Tsioka, K., Sinigaglia, A., Dal Molin, E., Shih, B., Günther, A., Pohlmann, A., Beer, M., Taylor, R. A., Bartumeus, F., Woolhouse, M., Aarestrup, F., Barzon, L., Papa, A., Lycett, S., & 1 others, 13 Nov 2022, bioRxiv.Research output: Working paper › Preprint
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Early-life inflammatory markers and subsequent episodes of depression and psychotic experiences in the ALSPAC birth cohort
Edmondson-Stait, A. J., Shen, X., Adams, M. J., Barbu, M. C., Jones, H. J., Miron, V. E., Allardyce, J., Boardman, J. P., Lawrie, S. M., McIntosh, A. M., Khandaker, G. M., Kwong, A. S. F. & Whalley, H. C., 12 Jul 2022, medRxiv.Research output: Working paper › Preprint
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Genomic selection for genotype performance and stability using information on multiple traits and multiple environments
Bančič, J., Ovenden, B., Gorjanc, G. & Tolhurst, D., 12 Jul 2022, (E-pub ahead of print) Research Square , p. 1-30, 29 p. (TAG Theoretical and Applied Genetics).Research output: Working paper › Preprint
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A method for partitioning trends in genetic mean and variance to understand breeding practices
De Paula Oliveira, T., Obsteter, J., Pocrnic, I., Heslot, N. & Gorjanc, G., 30 Jun 2022, bioRxiv, at Cold Spring Harbor Laboratory, (bioRxiv).Research output: Working paper › Preprint
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The suppressive potential of a gene drive in populations of invasive social wasps is currently limited
Meiborg, A. B., Faber, N., Taylor, B. A., Harpur, B. A. & Gorjanc, G., 30 Jun 2022, bioRxiv, p. 1-15, 15 p.Research output: Working paper › Preprint
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Optimisation of the core subset for the APY approximation of genomic relationships
Pocrnic, I., Lindgren, F., Tolhurst, D., Herring, WO. & Gorjanc, G., 6 Jun 2022, bioRxiv, at Cold Spring Harbor Laboratory, (bioRxiv).Research output: Working paper › Preprint
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Integrative single cell and spatial transcriptomic analysis reveal reciprocal microglia-plasma cell crosstalk in the mouse brain during chronic Trypanosoma brucei infection
Quintana, J., Chandrasegaran, P., Sinton, M., Briggs, E. M., Otto, T. D., Heslop, R., Bentley-Abbot, C., Loney, C., de Lecea, L., Mabbott, N. & MacLeod, A., 28 Mar 2022, (Accepted/In press) bioRxiv, at Cold Spring Harbor Laboratory, (bioRxiv).Research output: Working paper › Preprint
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Hypoxia shapes the immune landscape in lung injury promoting inflammation persistence
Mirchandani, A. S., Jenkins, S. J., Bain, C. C., Lawson, H., Coelho, P., Murphy, F., Griffith, D., Zhang, A., Sanchez-Garcia, M. A., Reyes, L., Morrison, T., Arienti, S., Sadiku, P., Watts, E. R., Dickinson, R. S., Clark, S., Ly, T., Lewis, D., Kelly, V., Spanos, C., & 21 others, 12 Mar 2022, bioRxiv, p. 1-53, 53 p.Research output: Working paper › Preprint
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The effects of caloric restriction on adipose tissue and metabolic health are sex- and age-dependent
Suchacki, K., Thomas, B. J., Fyfe, C., Tavares, A. A. S., Sulston, R., Lovdel, A., Woodward, H. J., Han, X., Mattiucci, D., Brain, E. J., Alcaide-Corral, C. J., Gray, G. A., Whitfield, P. D., Stimson, R. H., Morton, N. M., Johnstone, A. M. & Cawthorn, W. P., 22 Feb 2022, bioRxiv, (bioRxiv).Research output: Working paper › Preprint
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Rare and population-specific functional variation across pig lines
Ros-Freixedes, R., Valente, B. D., Chen, C-Y., Herring, W. O., Gorjanc, G., Hickey, J. M. & Johnsson, M., 2 Feb 2022, bioRxiv, 47 p.Research output: Working paper › Preprint
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Rapid and specific degradation of endogenous proteins in mouse models using auxin-inducible degrons
Wood, A. J., MacDonald, L. & Taylor, G., 13 Jan 2022, bioRxiv, at Cold Spring Harbor Laboratory.Research output: Working paper › Preprint
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2021
A comprehensive catalogue of regulatory variants in the cattle transcriptome
Liu, S., Gao, Y., Canela-Xandri, O., Wang, S., Yu, Y., Cai, W., Li, B., Pairo-Castineira, E., D'Mellow, K., Rawlik, K., Xia, C., Yao, Y., Li, X., Yan, Z., Li, C., Rosen, B., Van Tassell, C., Vanraden, P., Zhang, S., Ma, L., & 4 others, 11 Dec 2021, (bioRxiv).Research output: Working paper › Preprint
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No part gets left behind: Tiled nanopore sequencing of whole ASFV genomes stitched together using Lilo: Tiled amplicon sequencing with improved assembly of African Swine Fever Virus
Warr, A., Newman, C., Craig, N., Vendele, I., Pilare, R., Cariazo Cruz, L., Galase Barangan, T., Morales, R. G., Opriessnig, T., Mauro Venturina, V., Mananggit, M. R., Lycett, S., Domingo, C. YJ. & Tait-Burkard, C., 3 Dec 2021, (E-pub ahead of print) p. 1-35, 35 p. (bioRxiv).Research output: Working paper › Preprint
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FutureMS Cohort Profile: A Scottish Multi-Centre Inception Cohort Study of Relapsing-Remitting Multiple Sclerosis
Kearns, P. K. A., Martin, S. J., Chang, J., Meijboom, R., York, E. N., Chen, Y., Weaver, C., Stenson, A., Hafezi, K., Thomson, S., Freyer, E., Murphy, L., Harroud, A., Foley, P., Hunt, D., McLeod, M., O’Riordan, J., Carod-Artal, F. J., MacDougall, N. J. J., Baranzini, S. E., & 3 others, 8 Sept 2021, medRxiv.Research output: Working paper › Preprint
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Mechanisms and Stages of Covid-19 Immunopathology Revealed by Tissue-Specific Proteomes
Russell, C. D., Valanciute, A., Gachanja, N. N., Stephen, J., Penrice-Randal, R., Armstrong, S. D., Clohisey, S., Wang, B., Al Qsous, W., Wallace, W. A., Oniscu, G. C., Stevens, J., Harrison, D. J., Dhaliwal, K., Hiscox, J. A., Baillie, J. K., Akram, A. R., Dorward, D. A. & Lucas, C. D., 27 May 2021, Social Science Research Network (SSRN).Research output: Working paper › Preprint
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2020
AlphaImpute2: Fast and accurate pedigree and population based imputation for hundreds of thousands of individuals in livestock populations
Whalen, A., Gorjanc, G. & Hickey, J., 17 Sept 2020, bioRxiv, at Cold Spring Harbor Laboratory.Research output: Working paper › Preprint
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A platform for the graph-based visualisation and analysis of complex data
Freeman, T. C., Horsewell, S., Patir, A., Harling-Lee, J., Regan, T., Shih, B., Prendergast, J., Hume, D. A. & Angus, T., 3 Sept 2020, bioRxiv.Research output: Working paper › Preprint
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Genetic control of Campylobacter colonisation in broiler chickens: Genomic and transcriptomic characterisation
Psifidi, A., Kranis, A., Rothwell, L. M., Bremner, A., Russell, K., Robledo, D., Bush, S. J., Fife, M., Hocking, P. M., Banos, G., Hume, D. A., Kaufman, J., Bailey, R. A., Avendano, S., Watson, K. A., Kaiser, P. & Stevens, M. P., 14 Apr 2020, bioRxiv, 45 p.Research output: Working paper › Preprint
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2019
Single cell transcriptome analysis reveals markers of naïve and lineage-primed hematopoietic progenitors derived from human pluripotent stem cells
Fidanza, A., Romanò, N., Ramachandran, P., Tamagno, S., Lopez Yrigoyen, M., Taylor, H., Easterbrook, J., Henderson, B., Axton, R., Henderson, N. C., Medvinsky, A., Ottersbach, K. & Forrester, L. M., 11 Apr 2019, bioRxiv, 29 p.Research output: Working paper › Preprint
Open Access