AHIDA related publications and conference contributions

(including AHIDA supported projects OMIA and VBO)

2023

• J.R.S. Meadows, Kidd JM, Wang GD, Parker HG, Schall PZ, Bianchi M, Christmas MJ, Bougiouri K, Buckley RM, Hitte C, Nguyen AK, Wang C, Jagannathan V, Niskanen JE, Frantz LAF, Arumilli M, Hundi S, Lindblad-Toh K, Ginja C, Agustina KK, André C, Boyko AR, Davis BW, Drögemüller M, Feng XY, Gkagkavouzis K, Iliopoulos G, Harris AC, Hytönen MK, Kalthoff DC, Liu YH, Lymberakis P, Poulakakis N, Pires AE, Racimo F, Ramos-Almodovar F, Savolainen P, Venetsani S, Tammen I, Triantafyllidis A, vonHoldt B, Wayne RK, Larson G, Nicholas FW, Lohi H, Leeb T, Zhang YP, Ostrander EA. Genome sequencing of 2000 canids by the Dog10K consortium advances the understanding of demography, genome function and architecture. Genome Biol. 2023 Aug 15;24(1):187. doi: 10.1186/s13059-023-03023-7. PMID: 37582787; PMCID: PMC10426128.
• I. Tammen, M. Mather, D. Vanichkina, J. Nothman, Z. Li, S. Jufri and F.W. Nicholas. Online Mendelian Inheritance in Animals (OMIA) – looking to the future. Proceedings of the 25th Conference of the Association for the Advancement of Animal Breeding and Genetics (AAABG 2023), Perth: Association for the Advancement of Animal Breeding and Genetics. p286-289; http://www.aaabg.org/aaabghome/AAABG25papers/70Tammen25286.pdf (peer reviewed)
• I. Tammen, M. Mather, S. Toro, K.R. Mullen, H.M. Rando, N. Vasilevsky, N. Matentzoglu, M. Haendel, Z.-L. Hu, C.A. Park, G. Leroy, F.W. Nicholas. Introducing ontologies to Online Mendelian Inheritance in Animals. P283. 23rd International Congress of Genetics, 16-21 July 2023, Melbourne, https://www.icg2023.com.au/
• I. Tammen, M. Mather, S. Toro, K. R. Mullen, H. M. Rondo, N. Vasilevsky, N. Matentzoglu, M. Haendel, Z.-L. Hu, C. A. Park, G. Leroy, and F. W. Nicholas. Online Mendelian Inheritance in Animals—Introducing OMIA variant IDs and the Vertebrate Breed Ontology. Proceedings of the 39th International Conference on Animal Genetics, Cape Town, South Africa, P84; https://www.isag.us/Docs/Proceedings/ISAG_2023_Abstracts.pdf
• C. Wade.  Using genetic tests and reporting inherited disorders in dog breeding: How veterinarians can help (Parts 1 and 2). 48th Australian Small Animal Veterinarians (ASAV) Annual Conference, 7-10 August 2023, Gold Coast, Australia
• C.M. Wade. Geographic and breed-purpose influences on genetic diversity and inherited disease risk in the Doberman dog breed. 1st International Plant & Animal Genome Conference-Australia, 22-23 September 2023. Perth, Australia
• B.E. May, K.S. Notaras, B. Waud, B.D. Velie. Genetic diversity and relatedness in passively trapped Australian feral horses. 1st International Plant & Animal Genome Conference-Australia, 22-23 September 2023. Perth, Australia
• E.C. Pritchard, R. Gowan, D. Kocic, L. Boland, B. Haase. Hereditary xanthinuria in cats: From the clinic to the lab and back. 1st International Plant & Animal Genome Conference-Australia, 22-23 September 2023. Perth, Australia

2022

• N.A. Vasilevsky, N.A. Matentzoglu, S. Toro, J.E. Flack, H. Hegde, D.R. Unni, G. Alyea, J.S. Amberger, L. Babb, J.P. Balhoff, T.I. Bingaman, G.A. Burns, T.J. Callahan, L.C. Carmody, L.E. Chan, G.S. Chang, M. Dumontier, L.E. Failla, M.J. Flowers, H.A. Garrett, D. Gration, T. Groza, M. Hanauer, N.L. Harris, I. Helbig, J.A. Hilton, D.S. Himmelstein, C.T. Hoyt, M.S. Kane, S. Köhler, D. Lagorce, M. Larralde, A. Lock, I. López Santiago, D.R. Maglott, A.J. Malheiro, B.H.M. Meldal, J.A. McMurry, M. Munoz-Torres, T.H. Nelson, D. Ochoa, T.I. Oprea, D. Osumi-Sutherland, H. Parkinson, Z.M. Pendlington, A. Rath, H.L. Rehm, L. Remennik, E.R. Riggs, P. Roncaglia, J.E. Ross, M.F. Shadbolt, K.A. Shefchek, M.N. Similuk, N. Sioutos, R. Sparks, R. Stefancsik, R. Stephan, D. Stupp, J. Chandrabose Sundaramurthi, I. Tammen, C.L. Thaxton, E. Valasek, A.H. Wagner, D. Welter, P.L. Whetzel, L.L. Whiteman, V. Wood, C.H. Xu, A. Zankl, X.A. Zhang, C.G. Chute, P.N. Robinson, C.J. Mungall, A. Hamosh, M.A. Haendel. Mondo: Unifying diseases for the world, by the world. medRxiv 2022.04.13.22273750; doi: https://doi.org/10.1101/2022.04.13.22273750
• I. Tammen, M. Mather, Z. Li, J. Nothman, D.P. Vanichkina, and F.W. Nicholas. Online Mendelian Inheritance in Animals (OMIA) – future proofing of a globally used animal genetics knowledgebase. Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP), p757-760, 3-8 July 2022, Rotterdam, The Netherlands, https://www.wageningenacademic.com/doi/book/10.3920/978-90-8686-940-4 (peer reviewed)
• I. Tammen, C. Wade, B. Waud, M. Gimeno, B.D. Velie, B. O’Rourke, and F.W. Nicholas. The Anstee Hub for Inherited Diseases of Animals (AHIDA) – development of a new online platform for surveillance, reporting and control of inherited diseases in animals. 11th International Conference on canine and feline genetics and genomics. P61, 2 -8 October 2022, Huntsville, Alabama, USA, https://www.hudsonalpha.org/iccfgg-home/ and https://online.flippingbook.com/view/187823506/
• S. Mead, N. Beijerink, M. O’Brien, C.  Wade. Genetic variants at the nebulette locus are associated with myxomatous mitral valve disease severity in Cavalier King Charles Spaniels. 11th International Conference on Canine and Feline Genetics and Genomics (ICCFGG) Alabama USA (Poster)
• K.R. Mullen, N. Matentzoglu , H.M. Rando, N. Vasilevsky, M. Haendel, C.J. Mungall, Z.-L. Hu, G. Leroy, I. Tammen, F.W. Nicholas, and S. Toro. Abyssinian to Zebu: Classifying Animal Breeds with the Vertebrate Breed Ontology (VBO). ISCB Rocky Mountain Bioinformatics Conference, 8-10 December 2022 Snowmass Village, Colorado, USA https://www.iscb.org/rocky2022
• S. Toro, N. Matentzoglu, N. Vasilevsky, H.M. Rando, M. Haendel, C.J. Mungall, G. Leroy, I. Tammen, and F.W. Nicholas. Classifying animal breeds with the Vertebrate Breed Ontology (VBO).  ICBO 2022: International Conference on Biomedical Ontology, University of Michigan, Ann Arbor, MI, USA September 25-28, 2022, https://icbo-conference.github.io/icbo2022/slides/Toro_VBO_presentation_ICBO2022.pdf
• F.W. Nicholas, I. Tammen. A Mendel legacy for animals. Mendel Genetics Conference, 20-23 July 2022, Brno, CZ, https://www.mendel22.cz/conference/
• I. Tammen, F.W. Nicholas. Applying breed and phene ontologies to reporting and analysis of inherited conditions in animals. First Comparative Veterinary Informatics Workshop, 24-25 May 2022. University of Colorado Anschutz Medical Campus, USA. https://monarch-initiative.github.io/phenomics/pages/veterinary.html
• F.W. Nicholas, I. Tammen, B. O’Rourke. PANEL DISCUSSION. Reporting and surveillance of inherited conditions in animals. VetEXPO, 26-27 October 2022, https://www.iccsydney.com.au/whats-on/events/the-vet-expo-2021, Sydney, Australia

2021

• I. Tammen, K. L. M. Eager, S. A. Woolley, S. M. Y. Shields, S. Hermesch, B. A. O’Rourke, F. W. Nicholas. Online Mendelian Inheritance in Animals (OMIA): Updated variant tables for key livestock species. P369 (Poster). 38th International Society for Animal Genetics Conference, virtual conference, July 26-30, 2021. https://www.isag.us/Docs/Proceedings/ISAG2021_Proceedings.pdf
• I. Tammen, N. Vasilevsky, C. A. Park, Z. Hu, M. Haendel, F. W. Nicholas. Online Mendelian Inheritance in Animals (OMIA): Standardized vocabularies for breeds and traits. P197 (Poster) 38th International Society for Animal Genetics Conference, virtual conference, July 26-30, 2021. https://www.isag.us/Docs/Proceedings/ISAG2021_Proceedings.pdf
• I. Tammen, N. Vasilevsky, C.A. Park, Z.-L. Hu, M. Haendel, K. L.M. Eager, S.A. Woolley, S.M.Y. Shields, S. Hermesch, B.A. O’Rourke & F.W. Nicholas. Online Mendelian Inheritance in Animals (OMIA): Standardised vocabularies for variants, breeds and traits. W180 (Workshop talk). 38th International Society for Animal Genetics Conference, virtual conference, July 26-30, 2021. https://www.isag.us/Docs/Proceedings/ISAG2021_Proceedings.pdf
• I. Tammen, C. Wade, B. Waud, M. Godoy Gimeno, B. Velie, B. O’Rourke, F. Nicholas (2021). The Anstee Hub for Inherited Diseases of Animals (AHIDA) – development of a new online platform for surveillance, reporting and control of inherited diseases in animals. 24th Conference of the Association for the Advancement of Animal Breeding and Genetics (AAABG 2021), Armidale: http://www.aaabg.org/aaabghome/AAABG24papers/96Tammen24386.pdf (peer reviewed)
• B. O’Rourke, Inherited conditions in cattle. Annual conference of the Australian Wagyu Association, 2021 WagyuEdge, 27-29 April 2021, Gold Coast, Australia