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Author Details

Alan L Archibald
The Roslin Institute and R(D)SVS, University of Edinburgh
1978
183
50
PMIDPaper TitleJournal TitlePublished Year
36961337nf-core/isoseq: simple gene and isoform annotation with PacBio Iso-Seq long-read sequencing.Bioinformatics2023
34669106Characterisation of autophagy disruption in the ileum of pigs infected with Lawsonia intracellularis.Vet Res Commun2022
35027054Stem cell-derived porcine macrophages as a new platform for studying host-pathogen interactions.BMC Biol2022
34897420Profiling of open chromatin in developing pig (Sus scrofa) muscle to identify regulatory regions.G3 (Bethesda)2022
33764468A chromosome-level genome assembly for the Pacific oyster Crassostrea gigas.Gigascience2021
32498680Correction to: Genome-wide SNP data unveils the globalization of domesticated pigs.Genet Sel Evol2020
33193703Global Analysis of Transcription Start Sites in the New Ovine Reference Genome (Oar rambouillet v1.0).Front Genet2020
33126848Illuminating the dark side of the human transcriptome with long read transcript sequencing.BMC Genomics2020
33234160From FAANG to fork: application of highly annotated genomes to improve farmed animal production.Genome Biol2020
32675378Erratum for Burkard et al., "Pigs Lacking the Scavenger Receptor Cysteine-Rich Domain 5 of CD163 Are Resistant to Porcine Reproductive and Respiratory Syndrome Virus 1 Infection".J Virol2020
30530642Comprehensive Transcriptional Profiling of the Gastrointestinal Tract of Ruminants from Birth to Adulthood Reveals Strong Developmental Stage Specific Gene Expression.G3 (Bethesda)2019
31428126A Gene Expression Atlas of the Domestic Water Buffalo (Bubalus bubalis).Front Genet2019
29336925A novel inactivated vaccine against Lawsonia intracellularis induces rapid induction of humoral immunity, reduction of bacterial shedding and provides robust gut barrier function.Vaccine2018
29925651Pigs Lacking the Scavenger Receptor Cysteine-Rich Domain 5 of CD163 Are Resistant to Porcine Reproductive and Respiratory Syndrome Virus 1 Infection.J Virol2018
30477539Livestock 2.0 - genome editing for fitter, healthier, and more productive farmed animals.Genome Biol2018
30311252FAANG, establishing metadata standards, validation and best practices for the farmed and companion animal community.Anim Genet2018
29448955Analysis of the genetic diversity and mRNA expression level in porcine reproductive and respiratory syndrome virus vaccinated pigs that developed short or long viremias after challenge.Vet Res2018
28915238A high resolution atlas of gene expression in the domestic sheep (Ovis aries).PLoS Genet2017
28231264Precision engineering for PRRSV resistance in pigs: Macrophages from genome edited pigs lacking CD163 SRCR5 domain are fully resistant to both PRRSV genotypes while maintaining biological function.PLoS Pathog2017
28438136Normalized long read RNA sequencing in chicken reveals transcriptome complexity similar to human.BMC Genomics2017
28361286Quasispecies evolution of the prototypical genotype 1 porcine reproductive and respiratory syndrome virus early during in vivo infection is rapid and tissue specific.Arch Virol2017
28497848Isolation of subtelomeric sequences of porcine chromosomes for translocation screening reveals errors in the pig genome assembly.Anim Genet2017
28323899Lawsonia intracellularis exploits β-catenin/Wnt and Notch signalling pathways during infection of intestinal crypt to alter cell homeostasis and promote cell proliferation.PLoS One2017
28934946Genome-wide SNP data unveils the globalization of domesticated pigs.Genet Sel Evol2017
27010211Genome-Wide Analysis in Swine Associates Corneal Graft Rejection with Donor-Recipient Mismatches in Three Novel Histocompatibility Regions and One Locus Homologous to the Mouse H-3 Locus.PLoS One2016
26243137Genomic diversity and differentiation of a managed island wild boar population.Heredity (Edinb)2016
27765052Distinct functional enrichment of transcriptional signatures in pigs with high and low IFN-gamma responses after vaccination with a porcine reproductive and respiratory syndrome virus (PRRSV).Vet Res2016
27770812Combining laboratory and mathematical models to infer mechanisms underlying kinetic changes in macrophage susceptibility to an RNA virus.BMC Syst Biol2016
27453069GO-FAANG meeting: a Gathering On Functional Annotation of Animal Genomes.Anim Genet2016
26989612Epithelial, metabolic and innate immunity transcriptomic signatures differentiating the rumen from other sheep and mammalian gastrointestinal tract tissues.PeerJ2016
26856324Genome-wide association reveals QTL for growth, bone and in vivo carcass traits as assessed by computed tomography in Scottish Blackface lambs.Genet Sel Evol2016
26709850Characterization of the Interactome of the Porcine Reproductive and Respiratory Syndrome Virus Nonstructural Protein 2 Reveals the Hyper Variable Region as a Binding Platform for Association with 14-3-3 Proteins.J Proteome Res2016
25723810Avianbase: a community resource for bird genomics.Genome Biol2015
26377360Lawsonia intracellularis infection of intestinal crypt cells is associated with specific depletion of secreted MUC2 in goblet cells.Vet Immunol Immunopathol2015
26449733Efficiency of genomic prediction for boar taint reduction in Danish Landrace pigs.Anim Genet2015
26640477Identification of Low-Confidence Regions in the Pig Reference Genome (Sscrofa10.2).Front Genet2015
26582032Identification and annotation of conserved promoters and macrophage-expressed genes in the pig genome.BMC Genomics2015
26282327Third Report on Chicken Genes and Chromosomes 2015.Cytogenet Genome Res2015
26139844Exome Sequencing: Current and Future Perspectives.G3 (Bethesda)2015
25858116Detection of a quantitative trait locus associated with resistance to infection with Trichuris suis in pigs.Vet Parasitol2015
25854118Coordinated international action to accelerate genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes project.Genome Biol2015
25999564Complete Genome Sequence of a Pathogenic Genotype 1 Subtype 3 Porcine Reproductive and Respiratory Syndrome Virus (Strain SU1-Bel) from Pig Primary Tissue.Genome Announc2015
24456574A genome-wide linkage analysis for reproductive traits in F2 Large White ÿ Meishan cross gilts.Anim Genet2014
25312450Beyond the whole genome consensus: unravelling of PRRSV phylogenomics using next generation sequencing technologies.Virus Res2014
24988888Design and development of exome capture sequencing for the domestic pig (Sus scrofa).BMC Genomics2014
24894739Analysis of the genetics of boar taint reveals both single SNPs and regional effects.BMC Genomics2014
24885874Down-regulation of mechanisms involved in cell transport and maintenance of mucosal integrity in pigs infected with Lawsonia intracellularis.Vet Res2014
24904168The sheep genome illuminates biology of the rumen and lipid metabolism.Science2014
24524230Development and validation of a high density SNP genotyping array for Atlantic salmon (Salmo salar).BMC Genomics2014
24588855Genomic variation in macrophage-cultured European porcine reproductive and respiratory syndrome virus Olot/91 revealed using ultra-deep next generation sequencing.Virol J2014
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Collaborators

David A Hume
Mater Research Institute-UQ, Translational Research Institute
Co-authored papers 13
Andy Law
The Roslin Institute, University of Edinburgh
Co-authored papers 9
David W Burt
The Roslin Institute & R(D)SVS, University of Edinburgh
Co-authored papers 7
Tom C Freeman
The Roslin Institute, University of Edinburgh
Co-authored papers 5
James M Reecy
Iowa State University
Co-authored papers 5
Jane Rogers
The Wellcome Trust Sanger Institute
Co-authored papers 4
Brian P Dalrymple
Co-authored papers 4
Paul Flicek
European Bioinformatics Institute
Co-authored papers 4
Lynsey Fairbairn
Co-authored papers 4
Jonathan E Beever
Co-authored papers 4
Andy Brass
Co-authored papers 4
Sean Humphray
Illumina Ltd.
Co-authored papers 4
Carl J Schmidt
Co-authored papers 4
Zhi-Liang Hu
Iowa State University
Co-authored papers 3
Laura Clarke
Co-authored papers 3
Stephen M J Searle
Wellcome Trust Sanger Institute
Co-authored papers 3
Jun Wang
Zhongnan Hospital of Wuhan University
Co-authored papers 3
Kim M Summers
Mater Research Institute-University of Queensland, Translational Research Institute
Co-authored papers 3
Peter M Visscher
Co-authored papers 2
James G R Gilbert
Wellcome Sanger Institute
Co-authored papers 2
Wilfrid Carré
Co-authored papers 2
Peter F Stadler
Co-authored papers 2
Guojie Zhang
University of Copenhagen, Universitetsparken 15
Co-authored papers 2
Jennifer Harrow
Co-authored papers 2
Christopher J Mungall
International Society for Biocuration, Lawrence Berkeley National Laboratory, University of Edinburgh, University of Edinburgh School of Biological Sciences
Co-authored papers 2
Kim C Worley
Baylor College of Medicine
Co-authored papers 2
David H MacLennan
Co-authored papers 2
J Hu
Roslin Institute
Co-authored papers 2
Fiona M McCarthy
University of Arizona
Co-authored papers 2
Chunlei Wu
The Scripps Research Institute
Co-authored papers 2
Release 1.2