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2022 Conference Publication Identification of differentially expressed transcription factors in Brangus skin infested with Rhipicephalus australisMantilla Valdivieso, E. , Nguyen, L., Ross, E., Raza, A., James, P., Hayes, B., Jonsson, N. and Tabor, A. (2022). Identification of differentially expressed transcription factors in Brangus skin infested with Rhipicephalus australis. 12th World Congress on Genetics Applied to Livestock Production (WCGALP), Rotterdam, Netherlands, 3-8 July 2022. Wageningen, Netherlands: Wageningen Academic Publishers. doi: 10.3920/978-90-8686-940-4_557 |
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2022 Conference Publication The long and short of Nanopore genomic prediction: the effect of read length on prediction accuracyLamb, H.J., Nguyen, L.T., Randhawa, I.A.S., Hayes, B.J. and Ross, E.M. (2022). The long and short of Nanopore genomic prediction: the effect of read length on prediction accuracy. 12th World Congress on Genetics Applied to Livestock Production (WCGALP), Rotterdam, Netherlands, 3-8 July 2022. Wageningen, Netherlands: Wageningen Academic Publishers. doi: 10.3920/978-90-8686-940-4_279 |
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2022 Journal Article Genomic mate-allocation strategies exploiting additive and non-additive genetic effects to maximise total clonal performance in sugarcaneYadav, Seema, Ross, Elizabeth, Wei, Xianming, Powell, Owen, Hivert, Valentin, Hickey, Lee T., Atkin, Felicity, Deomano, Emily, Aitken, Karen S., Voss-Fels, Kai P. and Hayes, Ben J. (2022). Genomic mate-allocation strategies exploiting additive and non-additive genetic effects to maximise total clonal performance in sugarcane. |
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2022 Journal Article Adaptive sampling during sequencing reveals the origins of the bovine reproductive tract microbiome across reproductive stages and sexesOng, Chian Teng, Ross, Elizabeth M., Boe-Hansen, Gry, Turni, Conny, Hayes, Ben J., Fordyce, Geoffry and Tabor, Ala E. (2022). Adaptive sampling during sequencing reveals the origins of the bovine reproductive tract microbiome across reproductive stages and sexes. Scientific reports, 12 (1) 15075, 1-12. doi: 10.1038/s41598-022-19022-w |
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2022 Journal Article Metagenomic predictions: a review 10 years onRoss, Elizabeth M. and Hayes, Ben J. (2022). Metagenomic predictions: a review 10 years on. Frontiers in Genetics, 13 865765, 1-9. doi: 10.3389/fgene.2022.865765 |
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2022 Journal Article Transcriptional changes in the peripheral blood leukocytes from Brangus cattle before and after tick challenge with Rhipicephalus australisMantilla Valdivieso, Emily F., Ross, Elizabeth M., Raza, Ali, Naseem, Muhammad Noman, Kamran, Muhammad, Hayes, Ben J., Jonsson, Nicholas N., James, Peter and Tabor, Ala E. (2022). Transcriptional changes in the peripheral blood leukocytes from Brangus cattle before and after tick challenge with Rhipicephalus australis. BMC Genomics, 23 (1) 454, 1-20. doi: 10.1186/s12864-022-08686-3 |
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2022 Journal Article Evaluation of host depletion and extraction methods for shotgun metagenomic analysis of bovine vaginal samplesOng, Chian Teng, Boe-Hansen, Gry, Ross, Elizabeth M., Blackall, Patrick J., Turni, Conny, Hayes, Ben J. and Tabor, Ala E. (2022). Evaluation of host depletion and extraction methods for shotgun metagenomic analysis of bovine vaginal samples. Microbiology Spectrum, 10 (2), e0041221. doi: 10.1128/spectrum.00412-21 |
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2022 Journal Article Environmental variation effects fertility in tropical beef cattleCopley, James P., Engle, Bailey N., Ross, Elizabeth M., Speight, Shannon, Fordyce, Geoffry, Wood, Benjamin J., Voss-Fels, Kai P. and Hayes, Benjamin J. (2022). Environmental variation effects fertility in tropical beef cattle. Translational Animal Science, 6 (2) txac035, 1-10. doi: 10.1093/tas/txac035 |
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2022 Journal Article Extensive variation in gene expression is revealed in 13 fertility-related genes using RNA-Seq, ISO-Seq, and CAGE-Seq from Brahman cattleRoss, Elizabeth M., Sanjana, Hari, Nguyen, Loan T., Cheng, YuanYuan, Moore, Stephen S. and Hayes, Ben J. (2022). Extensive variation in gene expression is revealed in 13 fertility-related genes using RNA-Seq, ISO-Seq, and CAGE-Seq from Brahman cattle. Frontiers in Genetics, 13 784663, 784663. doi: 10.3389/fgene.2022.784663 |
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2022 Journal Article Technical note: overcoming host contamination in bovine vaginal metagenomic samples with nanopore adaptive sequencingOng, Chian Teng, Ross, Elizabeth M., Boe-Hansen, Gry B., Turni, Conny, Hayes, Ben J. and Tabor, Ala E. (2022). Technical note: overcoming host contamination in bovine vaginal metagenomic samples with nanopore adaptive sequencing. Journal of Animal Science, 100 (1) skab344. doi: 10.1093/jas/skab344 |
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2021 Journal Article Genomic prediction using low-coverage portable Nanopore sequencingLamb, Harrison J., Hayes, Ben J., Randhawa, Imtiaz A. S., Nguyen, Loan T. and Ross, Elizabeth M. (2021). Genomic prediction using low-coverage portable Nanopore sequencing. PLoS One, 16 (12) e0261274, e0261274. doi: 10.1371/journal.pone.0261274 |
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2021 Journal Article An Epigenetic Aging Clock for Cattle Using Portable Sequencing TechnologyHayes, Ben J., Nguyen, Loan T., Forutan, Mehrnush, Engle, Bailey N., Lamb, Harrison J., Copley, James P., Randhawa, Imtiaz A. S. and Ross, Elizabeth M. (2021). An Epigenetic Aging Clock for Cattle Using Portable Sequencing Technology. Frontiers in Genetics, 12 760450, 760450. doi: 10.3389/fgene.2021.760450 |
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2021 Conference Publication Assessing the relationship between beef cattle fertility traits and novel environmental descriptors in northern AustraliaCopley, J.P., Engle, B.N., Speight, S., Fordyce, G., Ross, E.M., Voss-Fels, K.P. and Hayes, B.J. (2021). Assessing the relationship between beef cattle fertility traits and novel environmental descriptors in northern Australia. 24th Association for the Advancement of Animal Breeding and Genetics Conference, Online, 2-4 November 2021. Armidale, NSW Australia: Association for the Advancement of Animal Breeding and Genetics. |
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2021 Conference Publication Accuracy of genomic prediction in Brahman cattle using simulated genotypes from low-coverage nanopore sequencingLamb, H. J. , Nguyen, L. T., Engle, B. N., Hayes, B. J. and Ross, E. M. (2021). Accuracy of genomic prediction in Brahman cattle using simulated genotypes from low-coverage nanopore sequencing. 24th Association for the Advancement of Animal Breeding and Genetics Conference, On-line with local hubs in Australia, 2-4 November 2021. Armidale, NSW Australia: Association for the Advancement of Animal Breeding and Genetics. |
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2021 Conference Publication Assessing the potential of parentage testing using portable long read sequencing technologiesRoss, E. M., Lamb, H. J., Engle, B. N. , Nguyen, L. T. and Hayes, B. J. (2021). Assessing the potential of parentage testing using portable long read sequencing technologies. 24th Association for the Advancement of Animal Breeding and Genetics Conference, On-line with local hubs in Australia, 2-4 November 2021. Armidale, NSW Australia: Association for the Advancement of Animal Breeding and Genetics. |
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2021 Conference Publication Genome wide analysis of bovine enhancers and promoters across developmental stages in liverForutan, M., Vander Jagt, C.J., Ross, E., Chamberlain, A. J., Mason, B., Nguyen, L., Moore, S., Garner, J. B., Xiang, R. and Hayes, B. J. (2021). Genome wide analysis of bovine enhancers and promoters across developmental stages in liver. 24th Association for the Advancement of Animal Breeding and Genetics Conference, On-line with local hubs in Australia, 2-4 November 2021. Armidale, NSW Australia: Association for the Advancement of Animal Breeding and Genetics. |
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2021 Journal Article A linkage disequilibrium-based approach to position unmapped SNPs in crop speciesYadav, Seema, Ross, Elizabeth M., Aitken, Karen S., Hickey, Lee T., Powell, Owen, Wei, Xianming, Voss-Fels, Kai P. and Hayes, Ben J. (2021). A linkage disequilibrium-based approach to position unmapped SNPs in crop species. BMC Genomics, 22 (1) 773, 1-9. doi: 10.1186/s12864-021-08116-w |
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2021 Journal Article Prowler: a novel trimming algorithm for Oxford Nanopore sequence dataLee, Simon, Nguyen, Loan T., Hayes, Ben J. and Ross, Elizabeth (2021). Prowler: a novel trimming algorithm for Oxford Nanopore sequence data. Bioinformatics, 37 (21), 3936-3937. doi: 10.1093/bioinformatics/btab630 |
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2021 Conference Publication Genome-wide analysis of transcription start sites across Bos indicus tissuesForutan, Mehrnush, Ross, Elizabeth, Nguyen, Loan and Hayes, Ben (2021). Genome-wide analysis of transcription start sites across Bos indicus tissues. 38th International Conference on Animal Genetics, Online, 26 - 30 July 2021. |
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2021 Conference Publication A Bos indicus epigenetic clock predicts age from tail hairNguyen, Loan T., Forutan, Mehrnush, Hayes, Ben J. and Ross, Elizabeth M. (2021). A Bos indicus epigenetic clock predicts age from tail hair. 38th International Society of Animal Genetics (ISAG), Virtual, 26 - 30 July 2021. |
