414 results on '"Chow, William"'
Search Results
52. The swan genome and transcriptome: its not all black and white
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Karawita, Anjana C., primary, Cheng, Yuanyuan, additional, Chew, Keng Yih, additional, Challgula, Arjun, additional, Kraus, Robert, additional, Mueller, Ralf C., additional, Tong, Marcus Z. W., additional, Hulme, Katina D., additional, Beielefeldt-Ohmann, Helle, additional, Steele, Lauren E., additional, Wu, Melanie, additional, Sng, Julian, additional, Noye, Ellesandra, additional, Bruxner, Timothy J., additional, Au, Gough G., additional, Lowther, Suzanne, additional, Blommaert, Julie, additional, Suh, Alexander, additional, McCauley, Alexander J., additional, Kaur, Parwinder, additional, Dudchenko, Olga, additional, Aiden, Erez, additional, Fedrigo, Olivier, additional, Formenti, Giulio, additional, Mountcastle, Jacquelyn, additional, Chow, William, additional, Martin, Fergal J., additional, Ogeh, Denye N., additional, Thiaud-Nissen, Françoise, additional, Howe, Kerstin, additional, Collins, Joanna, additional, Tracey, Alan, additional, Smith, Jacqueline, additional, Kuo, Richard I., additional, Renfree, Marilyn B., additional, Kimura, Takashi, additional, Sakoda, Yoshihiro, additional, McDougall, Mathew, additional, Spencer, Hamish G., additional, Pyne, Michael, additional, Tolf, Conny, additional, Waldenström, Jonas, additional, Jarvis, Erich D., additional, Baker, Michelle L., additional, Burt, David W., additional, and Short, Kirsty R., additional
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- 2022
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53. Pangenomics provides insights into the role of synanthropy in barn swallow evolution
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Secomandi, Simona, primary, Gallo, Guido Roberto, additional, Sozzoni, Marcella, additional, Iannucci, Alessio, additional, Galati, Elena, additional, Abueg, Linelle, additional, Balacco, Jennifer, additional, Caprioli, Manuela, additional, Chow, William, additional, Ciofi, Claudio, additional, Collins, Joanna, additional, Fedrigo, Olivier, additional, Ferretti, Luca, additional, Fungtammasan, Arkarachai, additional, Haase, Bettina, additional, Howe, Kerstin, additional, Kwak, Woori, additional, Lombardo, Gianluca, additional, Masterson, Patrick, additional, Messina, Graziella, additional, Møller, Anders Pape, additional, Mountcastle, Jacquelyn, additional, Mousseau, Timothy A., additional, Ferrer-Obiol, Joan, additional, Olivieri, Anna, additional, Rhie, Arang, additional, Rubolini, Diego, additional, Saclier, Marielle, additional, Stanyon, Roscoe, additional, Stucki, David, additional, Thibaud-Nissen, Françoise, additional, Torrance, James, additional, Torroni, Antonio, additional, Weber, Kristina, additional, Ambrosini, Roberto, additional, Bonisoli-Alquati, Andrea, additional, Jarvis, Erich D., additional, Gianfranceschi, Luca, additional, and Formenti, Giulio, additional
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- 2022
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54. Genomic consequences of domestication of the Siamese fighting fish
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Kwon, Young Mi, primary, Vranken, Nathan, additional, Hoge, Carla, additional, Lichak, Madison R., additional, Norovich, Amy L., additional, Francis, Kerel X., additional, Camacho-Garcia, Julia, additional, Bista, Iliana, additional, Wood, Jonathan, additional, McCarthy, Shane, additional, Chow, William, additional, Tan, Heok Hui, additional, Howe, Kerstin, additional, Bandara, Sepalika, additional, von Lintig, Johannes, additional, Rüber, Lukas, additional, Durbin, Richard, additional, Svardal, Hannes, additional, and Bendesky, Andres, additional
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- 2022
- Full Text
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55. Sex-specific changes in autosomal methylation rate in ageing common terns
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Meyer, Britta, primary, Moiron, Maria, additional, Caswara, Calvinna, additional, Chow, William, additional, Fedrigo, Olivier, additional, Formenti, Giulio, additional, Haase, Bettina, additional, Howe, Kerstin, additional, Mountcastle, Jacquelyn, additional, Uliano-Silva, Marcela, additional, Wood, Jonathan, additional, Jarvis, Erich, additional, Liedvogel, Miriam, additional, and Bouwhuis, Sandra, additional
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- 2022
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56. Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories
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Bentley, Blair P., primary, Carrasco-Valenzuela, Tomás, additional, Ramos, Elisa K. S., additional, Pawar, Harvinder, additional, Arantes, Larissa Souza, additional, Alexander, Alana, additional, Banerjee, Shreya M., additional, Masterson, Patrick, additional, Kuhlwilm, Martin, additional, Pippel, Martin, additional, Mountcastle, Jacquelyn, additional, Haase, Bettina, additional, Uliano-Silva, Marcela, additional, Formenti, Giulio, additional, Howe, Kerstin, additional, Chow, William, additional, Tracey, Alan, additional, Sims, Ying, additional, Pelan, Sarah, additional, Wood, Jonathan, additional, Yetsko, Kelsey, additional, Perrault, Justin R., additional, Stewart, Kelly, additional, Benson, Scott R., additional, Levy, Yaniv, additional, Todd, Erica V., additional, Shaffer, H. Bradley, additional, Scott, Peter, additional, Henen, Brian T., additional, Murphy, Robert W., additional, Mohr, David W., additional, Scott, Alan F., additional, Duffy, David J., additional, Gemmell, Neil J., additional, Suh, Alexander, additional, Winkler, Sylke, additional, Thibaud-Nissen, Françoise, additional, Nery, Mariana F., additional, Marques-Bonet, Tomas, additional, Antunes, Agostinho, additional, Tikochinski, Yaron, additional, Dutton, Peter H., additional, Fedrigo, Olivier, additional, Myers, Eugene W., additional, Jarvis, Erich D., additional, Mazzoni, Camila J., additional, and Komoroske, Lisa M., additional
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- 2022
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57. A Comparison of Some Omnibus Monitoring Schemes
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Chow, William, Srivastava, Muni S., Singh, V. P., editor, Hipel, Keith W., editor, and Fang, Liping, editor
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- 1994
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58. The genome sequence of the European golden eagle, Aquila chrysaetos chrysaetos Linnaeus 1758
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Mead, Dan, Ogden, Rob, Meredith, Anna, Peniche, Gabriela, Smith, Michelle, Corton, Craig, Oliver, Karen, Skelton, Jason, Betteridge, Emma, Doulcan, Jale, Holmes, Nadine, Wright, Victoria, Loose, Matt, Quail, Michael A, McCarthy, Shane A, Howe, Kerstin, Chow, William, Torrance, James, Collins, Joanna, Challis, Richard, Durbin, Richard, Blaxter, Mark, Mead, Dan [0000-0001-7717-4330], Ogden, Rob [0000-0002-2831-0428], Doulcan, Jale [0000-0002-3551-1770], Wright, Victoria [0000-0002-9288-4338], Loose, Matt [0000-0002-5264-0929], McCarthy, Shane A [0000-0002-2715-4187], Howe, Kerstin [0000-0003-2237-513X], Torrance, James [0000-0002-6117-8190], Challis, Richard [0000-0002-3502-1122], Durbin, Richard [0000-0002-9130-1006], and Apollo - University of Cambridge Repository
- Subjects
Aquila chrysaetos ,genome sequence ,European golden eagle ,chromosomal - Abstract
We present a genome assembly from an individual female Aquila chrysaetos chrysaetos (the European golden eagle; Chordata; Aves; Accipitridae). The genome sequence is 1.23 gigabases in span. The majority of the assembly is scaffolded into 28 chromosomal pseudomolecules, including the W and Z sex chromosomes.
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- 2021
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59. Recombination suppression and selection affect local ancestries in genomes of a migratory songbird
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Ishigohoka, Jun, primary, Bascón-Cardozo, Karen, additional, Bours, Andrea, additional, Fuß, Janina, additional, Rhie, Arang, additional, Mountcastle, Jacquelyn, additional, Haase, Bettina, additional, Chow, William, additional, Collins, Joanna, additional, Howe, Kerstin, additional, Uliano-Silva, Marcela, additional, Fedrigo, Olivier, additional, Jarvis, Erich D., additional, Pérez-Tris, Javier, additional, Illera, Juan Carlos, additional, and Liedvogel, Miriam, additional
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- 2021
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60. A high-quality genome and comparison of short- versus long-read transcriptome of the palaearctic duck Aythya fuligula (tufted duck)
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Mueller, Ralf C, primary, Ellström, Patrik, additional, Howe, Kerstin, additional, Uliano-Silva, Marcela, additional, Kuo, Richard I, additional, Miedzinska, Katarzyna, additional, Warr, Amanda, additional, Fedrigo, Olivier, additional, Haase, Bettina, additional, Mountcastle, Jacquelyn, additional, Chow, William, additional, Torrance, James, additional, Wood, Jonathan M D, additional, Järhult, Josef D, additional, Naguib, Mahmoud M, additional, Olsen, Björn, additional, Jarvis, Erich D, additional, Smith, Jacqueline, additional, Eöry, Lél, additional, and Kraus, Robert H S, additional
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- 2021
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61. Growth Attenuation of Cutaneous Angiosarcoma With Propranolol-Mediated β-Blockade
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Chow, William, Amaya, Clarissa N., Rains, Steven, Chow, Michael, Dickerson, Erin B., and Bryan, Brad A.
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- 2015
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62. Genomic organization of Atlantic salmon ( Salmo salar) fatty acid binding protein (fabp2) genes reveals independent loss of duplicate loci in teleosts
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Lai, Yvonne Y.Y., Lubieniecki, Krzysztof P., Phillips, Ruth B., Chow, William, Koop, Ben F., and Davidson, William S.
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- 2009
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63. A Chromosome-Level Genome Assembly of the Reed Warbler (Acrocephalus scirpaceus)
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Sætre, Camilla Lo Cascio, primary, Eroukhmanoff, Fabrice, additional, Rönkä, Katja, additional, Kluen, Edward, additional, Thorogood, Rose, additional, Torrance, James, additional, Tracey, Alan, additional, Chow, William, additional, Pelan, Sarah, additional, Howe, Kerstin, additional, Jakobsen, Kjetill S, additional, and Tørresen, Ole K, additional
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- 2021
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64. The genome sequence of the European turtle dove, Streptopelia turtur Linnaeus 1758
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Dunn, Jenny C., primary, Hamer, Keith C., additional, Morris, Antony J., additional, Grice, Philip V., additional, Smith, Michelle, additional, Corton, Craig, additional, Oliver, Karen, additional, Skelton, Jason, additional, Betteridge, Emma, additional, Dolucan, Jale, additional, Quail, Michael A., additional, McCarthy, Shane A., additional, Uliano-Silva, Marcela, additional, Howe, Kerstin, additional, Torrance, James, additional, Chow, William, additional, Pelan, Sarah, additional, Sims, Ying, additional, Challis, Richard, additional, Threlfall, Jonathan, additional, Mead, Daniel, additional, and Blaxter, Mark, additional
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- 2021
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65. The genome sequence of the brown trout, Salmo trutta Linnaeus 1758
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Hansen, Tom, Fjelldal, Per Gunnar, Lien, Sigbjørn, Smith, Michelle, Corton, Craig, Oliver, Karen, Skelton, Jason, Betteridge, Emma, Doulcan, Jale, Fedrigo, Olivier, Mountcastle, Jacquelyn, Jarvis, Erich, McCarthy, Shane A, Chow, William, Howe, Kerstin, Torrance, James, Wood, Jonathan, Sims, Ying, Haggerty, Leanne, Challis, Richard, Threlfall, Jonathan, Mead, Daniel, Durbin, Richard, Blaxter, Mark, Hansen, Tom [0000-0002-4784-5014], Doulcan, Jale [0000-0002-3551-1770], Fedrigo, Olivier [0000-0002-6450-7551], Mountcastle, Jacquelyn [0000-0003-1078-4905], Howe, Kerstin [0000-0003-2237-513X], Torrance, James [0000-0002-6117-8190], Wood, Jonathan [0000-0002-7545-2162], Challis, Richard [0000-0002-3502-1122], Threlfall, Jonathan [0000-0001-8599-4320], Mead, Daniel [0000-0001-7717-4330], Durbin, Richard [0000-0002-9130-1006], Blaxter, Mark [0000-0003-2861-949X], and Apollo - University of Cambridge Repository
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brown trout ,animal diseases ,genome sequence ,Salmo trutta ,chromosomal - Abstract
We present a genome assembly from an individual female Salmo trutta (the brown trout; Chordata; Actinopteri; Salmoniformes; Salmonidae). The genome sequence is 2.37 gigabases in span. The majority of the assembly is scaffolded into 40 chromosomal pseudomolecules. Gene annotation of this assembly on Ensembl has identified 43,935 protein coding genes.
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- 2021
66. The genome sequence of the Norway rat, Rattus norvegicus Berkenhout 1769
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Howe, Kerstin, Dwinell, Melinda, Shimoyama, Mary, Corton, Craig, Betteridge, Emma, Dove, Alexander, Quail, Michael A, Smith, Michelle, Saba, Laura, Williams, Robert W, Chen, Hao, Kwitek, Anne E, McCarthy, Shane A, Uliano-Silva, Marcela, Chow, William, Tracey, Alan, Torrance, James, Sims, Ying, Challis, Richard, Threlfall, Jonathan, Blaxter, Mark, Howe, Kerstin [0000-0003-2237-513X], Saba, Laura [0000-0001-9649-1294], Williams, Robert W [0000-0001-8924-4447], Kwitek, Anne E [0000-0003-1024-4116], Tracey, Alan [0000-0002-4805-9058], Torrance, James [0000-0002-6117-8190], Challis, Richard [0000-0002-3502-1122], Threlfall, Jonathan [0000-0001-8599-4320], Blaxter, Mark [0000-0003-2861-949X], and Apollo - University of Cambridge Repository
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genome sequence ,chromosomal ,Rattus norvegicus ,reference genome ,Norway rat - Abstract
We present a genome assembly from an individual male Rattus norvegicus (the Norway rat; Chordata; Mammalia; Rodentia; Muridae). The genome sequence is 2.44 gigabases in span. The majority of the assembly is scaffolded into 20 chromosomal pseudomolecules, with both X and Y sex chromosomes assembled. This genome assembly, mRatBN7.2, represents the new reference genome for R. norvegicus and has been adopted by the Genome Reference Consortium.
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- 2021
67. Genomic consequences of domestication of the Siamese fighting fish
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Kwon, Young Mi, Vranken, Nathan, Hoge, Carla, Lichak, Madison R, Francis, Kerel X, Camacho-Garcia, Julia, Bista, Iliana, Wood, Jonathan, McCarthy, Shane, Chow, William, Tan, Heok Hui, Howe, Kerstin, Bandara, Sepalika, von Lintig, Johannes, Rüber, Lukas, Durbin, Richard, Svardal, Hannes, and Bendesky, Andres
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570 Life sciences ,biology - Abstract
Siamese fighting fish, commonly known as betta, are among the world’s most popular and morphologically diverse pet fish, but the genetic processes leading to their domestication and phenotypic diversification are largely unknown. We assembled de novo the genome of a wild Betta splendens and whole-genome sequenced multiple individuals across five species within the B. splendens species complex, including wild populations and domesticated ornamental betta. Given our estimate of the mutation rate from pedigrees, our analyses suggest that betta were domesticated at least 1,000 years ago, centuries earlier than previously thought. Ornamental betta individuals have variable contributions from other Betta species and have also introgressed into wild populations of those species. We identify dmrt1 as the main sex determination gene in ornamental betta but not in wild B. splendens, and find evidence for recent directional selection at the X-allele of the locus. Furthermore, we find genes with signatures of recent, strong selection that have large effects on color in specific parts of the body, or the shape of individual fins, and are almost all unlinked. Our results demonstrate how simple genetic architectures paired with anatomical modularity can lead to vast phenotypic diversity generated during animal domestication, and set the stage for using betta as a modern system for evolutionary genetics.
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- 2021
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68. A high-quality genome and comparison of short-versus long-read transcriptome of the palaearctic duck Aythya fuligula (tufted duck)
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Mueller, Ralf C., Ellström, Patrik, Howe, Kerstin, Uliano-Silva, Marcela, Kuo, Richard I., Miedzinska, Katarzyna, Warr, Amanda, Fedrigo, Olivier, Haase, Bettina, Mountcastle, Jacquelyn, Chow, William, Torrance, James, Wood, Jonathan M. D., Järhult, Josef D., Naguib, Mahmoud, Olsen, Björn, Jarvis, Erich D., Smith, Jacqueline, Eory, Lel, Kraus, Robert H. S., Mueller, Ralf C., Ellström, Patrik, Howe, Kerstin, Uliano-Silva, Marcela, Kuo, Richard I., Miedzinska, Katarzyna, Warr, Amanda, Fedrigo, Olivier, Haase, Bettina, Mountcastle, Jacquelyn, Chow, William, Torrance, James, Wood, Jonathan M. D., Järhult, Josef D., Naguib, Mahmoud, Olsen, Björn, Jarvis, Erich D., Smith, Jacqueline, Eory, Lel, and Kraus, Robert H. S.
- Abstract
Background: The tufted duck is a non-model organism that experiences high mortality in highly pathogenic avian influenza outbreaks. It belongs to the same bird family (Anatidae) as the mallard, one of the best-studied natural hosts of low-pathogenic avian influenza viruses. Studies in non-model bird species are crucial to disentangle the role of the host response in avian influenza virus infection in the natural reservoir. Such endeavour requires a high-quality genome assembly and transcriptome. Findings: This study presents the first high-quality, chromosome-level reference genome assembly of the tufted duck using the Vertebrate Genomes Project pipeline. We sequenced RNA (complementary DNA) from brain, ileum, lung, ovary, spleen, and testis using Illumina short-read and Pacific Biosciences long-read sequencing platforms, which were used for annotation. We found 34 autosomes plus Z and W sex chromosomes in the curated genome assembly, with 99.6% of the sequence assigned to chromosomes. Functional annotation revealed 14,099 protein-coding genes that generate 111,934 transcripts, which implies a mean of 7.9 isoforms per gene. We also identified 246 small RNA families. Conclusions: This annotated genome contributes to continuing research into the host response in avian influenza virus infections in a natural reservoir. Our findings from a comparison between short-read and long -read reference transcriptomics contribute to a deeper understanding of these competing options. In this study, both technologies complemented each other. We expect this annotation to be a foundation for further comparative and evolutionary genomic studies, including many waterfowl relatives with differing susceptibilities to avian influenza viruses.
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- 2021
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69. Towards complete and error-free genome assemblies of all vertebrate species
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National Institutes of Health (US), National Human Genome Research Institute (US), Ministry of Health and Welfare (South Korea), Wellcome Trust, European Molecular Biology Laboratory, Howard Hughes Medical Institute, Rockefeller University, Robert and Rosabel Osborne Endowment, European Commission, National Library of Medicine (US), Korea Institute of Marine Science & Technology, Ministry of Oceans and Fisheries (South Korea), Alfred P. Sloan Foundation, Max Planck Society, Maine Department of Inland Fisheries & Wildlife, National Science Foundation (US), University of Queensland, Science Exchange, Northeastern University (US), Federal Ministry of Education and Research (Germany), EMBO, National Key Research and Development Program (China), Qatar Society of Al-Gannas (Algannas), Katara Cultural Village, Government of Qatar, Monash University Malaysia, Hessen State Ministry of Higher Education, Research and the Arts, Ministry of Science, Research and Art Baden-Württemberg, Agency for Science, Technology and Research A*STAR (Singapore), European Research Council, Ministerio de Ciencia, Innovación y Universidades (España), Fundación la Caixa, Generalitat de Catalunya, Irish Research Council, Danish National Research Foundation, Australian Research Council, Rhie, Arang, McCarthy, Shane A., Fedrigo, Olivier, Damas, Joana, Formenti, Giulio, Koren, Sergey, Uliano-Silva, Marcela, Chow, William, Fungtammasan, Arkarachai, Kim, Juwan, Lee, Chul, Haase, Bettina, Mountcastle, Jacquelyn, Winkler, Sylke, Paez, Sadye, Howard, Jason, Vernes, Sonja C, Lama, Tanya M, Grützner, Frank, Warren, Wesley C., Balakrishnan, Christopher N., Pippel, Martin, Burt, Dave, George, Julia M., Biegler, Matthew T., Iorns, David, Digby, Andrew, Eason, Daryl, Robertson, Bruce, Edwards, Taylor, Wilkinson, Mark, Turner, George, Malinsky, Milan, Meyer, Axel, Kautt, Andreas F., Franchini, Paolo, Detrich III, H. William, Svardal, Hannes, Wagner, Maximilian, Naylor, Gavin J. P., Mooney, Mark, Simbirsky, Maria, Hannigan, Brett T., Pesout, Trevor, Houck, Marlys L., Misuraca, Ann, Kingan, Sarah B., Hall, Richard, Wood, Jonathan, Kronenberg, Zev, Sović, Ivan, Dunn, Christopher, Ning, Zemin, Hastie, Alex, Lee, Joyce, Selvaraj, Siddarth, Green, Richard E., Putnam, Nicholas H., Gut, Ivo, Dagnew, Robel E., Ghurye, Jay, Garrison, Erik, Sims, Ying, Collins, Joanna, Pelan, Sarah, Torrance, James, Tracey, Alan, Guan, Dengfeng, London, Sarah E., Clayton, David F., Mello, Claudio V., Friedrich, Samantha R., Lovell, Peter V., Osipova, Ekaterina, Al-Ajli, Farooq O., Diekhans, Mark, Secomandi, Simona, Kim, Heebal, Theofanopoulou, Constantina, Hiller, Michael, Zhou, Yang, Harris, Robert S., Makova, Kateryna D., Medvedev, Paul, Hoffman, Jinna, Masterson, Patrick, Nassar, Luis, Clark, Karen, Martin, Fergal, Howe, Kevin, Flicek, Paul, Walenz, Brian P., Kwak, Woori, Clawson, Hiram, Paten, Benedict, Kraus, Robert H. S., Crawford, Andrew J., Gilbert, M. Thomas P., Zhang, Guojie, Venkatesh, Byrappa, Murphy, Robert W., Koepfli, Klaus-Peter, Ko, Byung June, Shapiro, Beth, Johnson, Warren E., Di Palma, Federica, Marqués-Bonet, Tomàs, Teeling, Emma C., Warnow, Tandy, Marshall Graves, Jennifer, Ryder, Oliver A., Haussler, David, O’Brien, Stephen J., Chaisson, Mark, Korlach, Jonas, Lewin, Harris A., Howe, Kerstin, Myers, Eugene W., Durbin, Richard, Phillippy, Adam M., Jarvis, Erich D., Gedman, Gregory L., Cantin, Lindsey J., Thibaud-Nissen, Francoise, Haggerty, Leanne, Bista, Iliana, Smith, Michelle, National Institutes of Health (US), National Human Genome Research Institute (US), Ministry of Health and Welfare (South Korea), Wellcome Trust, European Molecular Biology Laboratory, Howard Hughes Medical Institute, Rockefeller University, Robert and Rosabel Osborne Endowment, European Commission, National Library of Medicine (US), Korea Institute of Marine Science & Technology, Ministry of Oceans and Fisheries (South Korea), Alfred P. Sloan Foundation, Max Planck Society, Maine Department of Inland Fisheries & Wildlife, National Science Foundation (US), University of Queensland, Science Exchange, Northeastern University (US), Federal Ministry of Education and Research (Germany), EMBO, National Key Research and Development Program (China), Qatar Society of Al-Gannas (Algannas), Katara Cultural Village, Government of Qatar, Monash University Malaysia, Hessen State Ministry of Higher Education, Research and the Arts, Ministry of Science, Research and Art Baden-Württemberg, Agency for Science, Technology and Research A*STAR (Singapore), European Research Council, Ministerio de Ciencia, Innovación y Universidades (España), Fundación la Caixa, Generalitat de Catalunya, Irish Research Council, Danish National Research Foundation, Australian Research Council, Rhie, Arang, McCarthy, Shane A., Fedrigo, Olivier, Damas, Joana, Formenti, Giulio, Koren, Sergey, Uliano-Silva, Marcela, Chow, William, Fungtammasan, Arkarachai, Kim, Juwan, Lee, Chul, Haase, Bettina, Mountcastle, Jacquelyn, Winkler, Sylke, Paez, Sadye, Howard, Jason, Vernes, Sonja C, Lama, Tanya M, Grützner, Frank, Warren, Wesley C., Balakrishnan, Christopher N., Pippel, Martin, Burt, Dave, George, Julia M., Biegler, Matthew T., Iorns, David, Digby, Andrew, Eason, Daryl, Robertson, Bruce, Edwards, Taylor, Wilkinson, Mark, Turner, George, Malinsky, Milan, Meyer, Axel, Kautt, Andreas F., Franchini, Paolo, Detrich III, H. William, Svardal, Hannes, Wagner, Maximilian, Naylor, Gavin J. P., Mooney, Mark, Simbirsky, Maria, Hannigan, Brett T., Pesout, Trevor, Houck, Marlys L., Misuraca, Ann, Kingan, Sarah B., Hall, Richard, Wood, Jonathan, Kronenberg, Zev, Sović, Ivan, Dunn, Christopher, Ning, Zemin, Hastie, Alex, Lee, Joyce, Selvaraj, Siddarth, Green, Richard E., Putnam, Nicholas H., Gut, Ivo, Dagnew, Robel E., Ghurye, Jay, Garrison, Erik, Sims, Ying, Collins, Joanna, Pelan, Sarah, Torrance, James, Tracey, Alan, Guan, Dengfeng, London, Sarah E., Clayton, David F., Mello, Claudio V., Friedrich, Samantha R., Lovell, Peter V., Osipova, Ekaterina, Al-Ajli, Farooq O., Diekhans, Mark, Secomandi, Simona, Kim, Heebal, Theofanopoulou, Constantina, Hiller, Michael, Zhou, Yang, Harris, Robert S., Makova, Kateryna D., Medvedev, Paul, Hoffman, Jinna, Masterson, Patrick, Nassar, Luis, Clark, Karen, Martin, Fergal, Howe, Kevin, Flicek, Paul, Walenz, Brian P., Kwak, Woori, Clawson, Hiram, Paten, Benedict, Kraus, Robert H. S., Crawford, Andrew J., Gilbert, M. Thomas P., Zhang, Guojie, Venkatesh, Byrappa, Murphy, Robert W., Koepfli, Klaus-Peter, Ko, Byung June, Shapiro, Beth, Johnson, Warren E., Di Palma, Federica, Marqués-Bonet, Tomàs, Teeling, Emma C., Warnow, Tandy, Marshall Graves, Jennifer, Ryder, Oliver A., Haussler, David, O’Brien, Stephen J., Chaisson, Mark, Korlach, Jonas, Lewin, Harris A., Howe, Kerstin, Myers, Eugene W., Durbin, Richard, Phillippy, Adam M., Jarvis, Erich D., Gedman, Gregory L., Cantin, Lindsey J., Thibaud-Nissen, Francoise, Haggerty, Leanne, Bista, Iliana, and Smith, Michelle
- Abstract
High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, and biodiversity conservation. However, such assemblies are available for only a few non-microbial species1,2,3,4. To address this issue, the international Genome 10K (G10K) consortium5,6 has worked over a five-year period to evaluate and develop cost-effective methods for assembling highly accurate and nearly complete reference genomes. Here we present lessons learned from generating assemblies for 16 species that represent six major vertebrate lineages. We confirm that long-read sequencing technologies are essential for maximizing genome quality, and that unresolved complex repeats and haplotype heterozygosity are major sources of assembly error when not handled correctly. Our assemblies correct substantial errors, add missing sequence in some of the best historical reference genomes, and reveal biological discoveries. These include the identification of many false gene duplications, increases in gene sizes, chromosome rearrangements that are specific to lineages, a repeated independent chromosome breakpoint in bat genomes, and a canonical GC-rich pattern in protein-coding genes and their regulatory regions. Adopting these lessons, we have embarked on the Vertebrate Genomes Project (VGP), an international effort to generate high-quality, complete reference genomes for all of the roughly 70,000 extant vertebrate species and to help to enable a new era of discovery across the life sciences.
- Published
- 2021
70. Analyses of pig genomes provide insight into porcine demography and evolution
- Author
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Groenen, Martien A. M., Archibald, Alan L., Uenishi, Hirohide, Tuggle, Christopher K., Takeuchi, Yasuhiro, Rothschild, Max F., Rogel-Gaillard, Claire, Park, Chankyu, Milan, Denis, Megens, Hendrik-Jan, Li, Shengting, Larkin, Denis M., Kim, Heebal, Frantz, Laurent A. F., Caccamo, Mario, Ahn, Hyeonju, Aken, Bronwen L., Anselmo, Anna, Anthon, Christian, Auvil, Loretta, Badaoui, Bouabid, Beattie, Craig W., Bendixen, Christian, Berman, Daniel, Blecha, Frank, Blomberg, Jonas, Bolund, Lars, Bosse, Mirte, Botti, Sara, Bujie, Zhan, Bystrom, Megan, Capitanu, Boris, Carvalho-Silva, Denise, Chardon, Patrick, Chen, Celine, Cheng, Ryan, Choi, Sang-Haeng, Chow, William, Clark, Richard C., Clee, Christopher, Crooijmans, Richard P. M. A., Dawson, Harry D., Dehais, Patrice, De Sapio, Fioravante, Dibbits, Bert, Drou, Nizar, Du, Zhi-Qiang, Eversole, Kellye, Fadista, João, Fairley, Susan, Faraut, Thomas, Faulkner, Geoffrey J., Fowler, Katie E., Fredholm, Merete, Fritz, Eric, Gilbert, James G. R., Giuffra, Elisabetta, Gorodkin, Jan, Griffin, Darren K., Harrow, Jennifer L., Hayward, Alexander, Howe, Kerstin, Hu, Zhi-Liang, Humphray, Sean J., Hunt, Toby, Hornshøj, Henrik, Jeon, Jin-Tae, Jern, Patric, Jones, Matthew, Jurka, Jerzy, Kanamori, Hiroyuki, Kapetanovic, Ronan, Kim, Jaebum, Kim, Jae-Hwan, Kim, Kyu-Won, Kim, Tae-Hun, Larson, Greger, Lee, Kyooyeol, Lee, Kyung-Tai, Leggett, Richard, Lewin, Harris A., Li, Yingrui, Liu, Wansheng, Loveland, Jane E., Lu, Yao, Lunney, Joan K., Ma, Jian, Madsen, Ole, Mann, Katherine, Matthews, Lucy, McLaren, Stuart, Morozumi, Takeya, Murtaugh, Michael P., Narayan, Jitendra, Truong Nguyen, Dinh, Ni, Peixiang, Oh, Song-Jung, Onteru, Suneel, Panitz, Frank, Park, Eung-Woo, Park, Hong-Seog, Pascal, Geraldine, Paudel, Yogesh, Perez-Enciso, Miguel, Ramirez-Gonzalez, Ricardo, Reecy, James M., Rodriguez-Zas, Sandra, Rohrer, Gary A., Rund, Lauretta, Sang, Yongming, Schachtschneider, Kyle, Schraiber, Joshua G., Schwartz, John, Scobie, Linda, Scott, Carol, Searle, Stephen, Servin, Bertrand, Southey, Bruce R., Sperber, Goran, Stadler, Peter, Sweedler, Jonathan V., Tafer, Hakim, Thomsen, Bo, Wali, Rashmi, Wang, Jian, Wang, Jun, White, Simon, Xu, Xun, Yerle, Martine, Zhang, Guojie, Zhang, Jianguo, Zhang, Jie, Zhao, Shuhong, Rogers, Jane, Churcher, Carol, and Schook, Lawrence B.
- Published
- 2012
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71. Volatility of stock price as predicted by patent data: An MGARCH perspective
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Chow, William W. and Fung, Michael K.
- Published
- 2008
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72. Genomic organization and characterization of two vomeronasal 1 receptor-like genes ( ora1 and ora2) in Atlantic salmon Salmo salar
- Author
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Johnstone, Kimberley A., Lubieniecki, Krzysztof P., Chow, William, Phillips, Ruth B., Koop, Ben F., and Davidson, William S.
- Published
- 2008
- Full Text
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73. The complete sequence of a human genome
- Author
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Nurk, Sergey, primary, Koren, Sergey, additional, Rhie, Arang, additional, Rautiainen, Mikko, additional, Bzikadze, Andrey V., additional, Mikheenko, Alla, additional, Vollger, Mitchell R., additional, Altemose, Nicolas, additional, Uralsky, Lev, additional, Gershman, Ariel, additional, Aganezov, Sergey, additional, Hoyt, Savannah J., additional, Diekhans, Mark, additional, Logsdon, Glennis A., additional, Alonge, Michael, additional, Antonarakis, Stylianos E., additional, Borchers, Matthew, additional, Bouffard, Gerard G., additional, Brooks, Shelise Y., additional, Caldas, Gina V., additional, Cheng, Haoyu, additional, Chin, Chen-Shan, additional, Chow, William, additional, de Lima, Leonardo G., additional, Dishuck, Philip C., additional, Durbin, Richard, additional, Dvorkina, Tatiana, additional, Fiddes, Ian T., additional, Formenti, Giulio, additional, Fulton, Robert S., additional, Fungtammasan, Arkarachai, additional, Garrison, Erik, additional, Grady, Patrick G.S., additional, Graves-Lindsay, Tina A., additional, Hall, Ira M., additional, Hansen, Nancy F., additional, Hartley, Gabrielle A., additional, Haukness, Marina, additional, Howe, Kerstin, additional, Hunkapiller, Michael W., additional, Jain, Chirag, additional, Jain, Miten, additional, Jarvis, Erich D., additional, Kerpedjiev, Peter, additional, Kirsche, Melanie, additional, Kolmogorov, Mikhail, additional, Korlach, Jonas, additional, Kremitzki, Milinn, additional, Li, Heng, additional, Maduro, Valerie V., additional, Marschall, Tobias, additional, McCartney, Ann M., additional, McDaniel, Jennifer, additional, Miller, Danny E., additional, Mullikin, James C., additional, Myers, Eugene W., additional, Olson, Nathan D., additional, Paten, Benedict, additional, Peluso, Paul, additional, Pevzner, Pavel A., additional, Porubsky, David, additional, Potapova, Tamara, additional, Rogaev, Evgeny I., additional, Rosenfeld, Jeffrey A., additional, Salzberg, Steven L., additional, Schneider, Valerie A., additional, Sedlazeck, Fritz J., additional, Shafin, Kishwar, additional, Shew, Colin J., additional, Shumate, Alaina, additional, Sims, Yumi, additional, Smit, Arian F. A., additional, Soto, Daniela C., additional, Sović, Ivan, additional, Storer, Jessica M., additional, Streets, Aaron, additional, Sullivan, Beth A., additional, Thibaud-Nissen, Françoise, additional, Torrance, James, additional, Wagner, Justin, additional, Walenz, Brian P., additional, Wenger, Aaron, additional, Wood, Jonathan M. D., additional, Xiao, Chunlin, additional, Yan, Stephanie M., additional, Young, Alice C., additional, Zarate, Samantha, additional, Surti, Urvashi, additional, McCoy, Rajiv C., additional, Dennis, Megan Y., additional, Alexandrov, Ivan A., additional, Gerton, Jennifer L., additional, O’Neill, Rachel J., additional, Timp, Winston, additional, Zook, Justin M., additional, Schatz, Michael C., additional, Eichler, Evan E., additional, Miga, Karen H., additional, and Phillippy, Adam M., additional
- Published
- 2021
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74. The genome sequence of the Norway rat, Rattus norvegicus Berkenhout 1769
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Howe, Kerstin, primary, Dwinell, Melinda, additional, Shimoyama, Mary, additional, Corton, Craig, additional, Betteridge, Emma, additional, Dove, Alexander, additional, Quail, Michael A., additional, Smith, Michelle, additional, Saba, Laura, additional, Williams, Robert W., additional, Chen, Hao, additional, Kwitek, Anne E., additional, McCarthy, Shane A., additional, Uliano-Silva, Marcela, additional, Chow, William, additional, Tracey, Alan, additional, Torrance, James, additional, Sims, Ying, additional, Challis, Richard, additional, Threlfall, Jonathan, additional, and Blaxter, Mark, additional
- Published
- 2021
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75. The genome sequence of the European golden eagle, Aquila chrysaetos chrysaetos Linnaeus 1758
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Mead, Dan, primary, Ogden, Rob, additional, Meredith, Anna, additional, Peniche, Gabriela, additional, Smith, Michelle, additional, Corton, Craig, additional, Oliver, Karen, additional, Skelton, Jason, additional, Betteridge, Emma, additional, Doulcan, Jale, additional, Holmes, Nadine, additional, Wright, Victoria, additional, Loose, Matt, additional, Quail, Michael A., additional, McCarthy, Shane A., additional, Howe, Kerstin, additional, Chow, William, additional, Torrance, James, additional, Collins, Joanna, additional, Challis, Richard, additional, Durbin, Richard, additional, and Blaxter, Mark, additional
- Published
- 2021
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76. The genome sequence of the brown trout, Salmo trutta Linnaeus 1758
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Hansen, Tom, primary, Fjelldal, Per Gunnar, additional, Lien, Sigbjørn, additional, Smith, Michelle, additional, Corton, Craig, additional, Oliver, Karen, additional, Skelton, Jason, additional, Betteridge, Emma, additional, Doulcan, Jale, additional, Fedrigo, Olivier, additional, Mountcastle, Jacquelyn, additional, Jarvis, Erich, additional, McCarthy, Shane A., additional, Chow, William, additional, Howe, Kerstin, additional, Torrance, James, additional, Wood, Jonathan, additional, Sims, Ying, additional, Haggerty, Leanne, additional, Challis, Richard, additional, Threlfall, Jonathan, additional, Mead, Daniel, additional, Durbin, Richard, additional, and Blaxter, Mark, additional
- Published
- 2021
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77. Genomic consequences of domestication of the Siamese fighting fish
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Kwon, Young Mi, primary, Vranken, Nathan, additional, Hoge, Carla, additional, Lichak, Madison R, additional, Francis, Kerel X, additional, Camacho-Garcia, Julia, additional, Bista, Iliana, additional, Wood, Jonathan, additional, McCarthy, Shane, additional, Chow, William, additional, Tan, Heok Hui, additional, Howe, Kerstin, additional, Bandara, Sepalika, additional, von Lintig, Johannes, additional, Rüber, Lukas, additional, Durbin, Richard, additional, Svardal, Hannes, additional, and Bendesky, Andres, additional
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- 2021
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78. Slack allocation and routing to improve FPGA timing while repairing short-path violations
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Fung, Ryan, Betz, Vaughn, and Chow, William
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Algorithm ,Field programmable gate array ,Algorithms -- Usage ,Gate arrays -- Design and construction ,Mathematical optimization -- Analysis - Published
- 2008
79. The genome sequence of the channel bull blenny, Cottoperca gobio (Günther, 1861)
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Bista, Iliana, McCarthy, Shane A, Wood, Jonathan, Ning, Zemin, Detrich Iii, H William, Desvignes, Thomas, Postlethwait, John, Chow, William, Howe, Kerstin, Torrance, James, Smith, Michelle, Oliver, Karen, Vertebrate Genomes Project Consortium, Miska, Eric A, Durbin, Richard, Bista, Iliana [0000-0002-6155-3093], McCarthy, Shane A [0000-0002-2715-4187], Wood, Jonathan [0000-0002-7545-2162], Detrich Iii, H William [0000-0002-0783-4505], Desvignes, Thomas [0000-0001-5126-8785], Howe, Kerstin [0000-0003-2237-513X], Torrance, James [0000-0002-6117-8190], and Apollo - University of Cambridge Repository
- Subjects
channel bull blenny ,genome assembly chromosomal ,Cottoperca gobio ,Notothenioidei - Abstract
We present a genome assembly for Cottoperca gobio (channel bull blenny, (Günther, 1861)); Chordata; Actinopterygii (ray-finned fishes), a temperate water outgroup for Antarctic Notothenioids. The size of the genome assembly is 609 megabases, with the majority of the assembly scaffolded into 24 chromosomal pseudomolecules. Gene annotation on Ensembl of this assembly has identified 21,662 coding genes.
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- 2020
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80. A high-quality Genome and Comparison of Short versus Long Read Transcriptome of the Palaearctic duckAythya fuligula(Tufted Duck)
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Mueller, Ralf C, primary, Ellström, Patrik, additional, Howe, Kerstin, additional, Uliano-Silva, Marcela, additional, Kuo, Richard I, additional, Miedzinska, Katarzyna, additional, Warr, Amanda, additional, Fedrigo, Olivier, additional, Haase, Bettina, additional, Mountcastle, Jacquelyn, additional, Chow, William, additional, Torrance, James, additional, Wood, Jonathan, additional, Järhult, Josef D, additional, Naguib, Mahmoud M, additional, Olsen, Björn, additional, Jarvis, Erich D, additional, Smith, Jacqueline, additional, Eöry, Lél, additional, and Kraus, Robert HS, additional
- Published
- 2021
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81. Significantly improving the quality of genome assemblies through curation
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Howe, Kerstin, primary, Chow, William, additional, Collins, Joanna, additional, Pelan, Sarah, additional, Pointon, Damon-Lee, additional, Sims, Ying, additional, Torrance, James, additional, Tracey, Alan, additional, and Wood, Jonathan, additional
- Published
- 2021
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82. Fixing the Broken State of Mobile Security
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Chow, William, primary
- Published
- 2016
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83. An outlier robust Hierarchical Bayes Model for forecasting: the case of Hong Kong
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Chow, William W.
- Subjects
Business forecasting -- Models ,Bayesian statistical decision theory ,Business ,Economics ,Government ,Mathematics - Abstract
An attempt to robustify the Bayesian vector autoregression is discussed by studying the innovative outliers. A summary of the result of outlier identification is presented.
- Published
- 2004
84. The zebrafish reference genome sequence and its relationship to the human genome
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Howe, Kerstin, Clark, Matthew D., Torroja, Carlos F., Torrance, James, Berthelot, Camille, Muffato, Matthieu, Collins, John E., Humphray, Sean, McLaren, Karen, Matthews, Lucy, McLaren, Stuart, Sealy, Ian, Caccamo, Mario, Churcher, Carol, Scott, Carol, Barrett, Jeffrey C., Koch, Romke, Rauch, Gerd-Jörg, White, Simon, Chow, William, Kilian, Britt, Quintais, Leonor T., Guerra-Assunção, José A., Zhou, Yi, Gu, Yong, Yen, Jennifer, Vogel, Jan-Hinnerk, Eyre, Tina, Redmond, Seth, Banerjee, Ruby, Chi, Jianxiang, Fu, Beiyuan, Langley, Elizabeth, Maguire, Sean F., Laird, Gavin K., Lloyd, David, Kenyon, Emma, Donaldson, Sarah, Sehra, Harminder, Almeida-King, Jeff, Loveland, Jane, Trevanion, Stephen, Jones, Matt, Quail, Mike, Willey, Dave, Hunt, Adrienne, Burton, John, Sims, Sarah, McLay, Kirsten, Plumb, Bob, Davis, Joy, Clee, Chris, Oliver, Karen, Clark, Richard, Riddle, Clare, Eliott, David, Threadgold, Glen, Harden, Glenn, Ware, Darren, Mortimer, Beverly, Kerry, Giselle, Heath, Paul, Phillimore, Benjamin, Tracey, Alan, Corby, Nicole, Dunn, Matthew, Johnson, Christopher, Wood, Jonathan, Clark, Susan, Pelan, Sarah, Griffiths, Guy, Smith, Michelle, Glithero, Rebecca, Howden, Philip, Barker, Nicholas, Stevens, Christopher, Harley, Joanna, Holt, Karen, Panagiotidis, Georgios, Lovell, Jamieson, Beasley, Helen, Henderson, Carl, Gordon, Daria, Auger, Katherine, Wright, Deborah, Collins, Joanna, Raisen, Claire, Dyer, Lauren, Leung, Kenric, Robertson, Lauren, Ambridge, Kirsty, Leongamornlert, Daniel, McGuire, Sarah, Gilderthorp, Ruth, Griffiths, Coline, Manthravadi, Deepa, Nichol, Sarah, Barker, Gary, Whitehead, Siobhan, Kay, Michael, Brown, Jacqueline, Murnane, Clare, Gray, Emma, Humphries, Matthew, Sycamore, Neil, Barker, Darren, Saunders, David, Wallis, Justene, Babbage, Anne, Hammond, Sian, Mashreghi-Mohammadi, Maryam, Barr, Lucy, Martin, Sancha, Wray, Paul, Ellington, Andrew, Matthews, Nicholas, Ellwood, Matthew, Woodmansey, Rebecca, Clark, Graham, Cooper, James, Tromans, Anthony, Grafham, Darren, Skuce, Carl, Pandian, Richard, Andrews, Robert, Harrison, Elliot, Kimberley, Andrew, Garnett, Jane, Fosker, Nigel, Hall, Rebekah, Garner, Patrick, Kelly, Daniel, Bird, Christine, Palmer, Sophie, Gehring, Ines, Berger, Andrea, Dooley, Christopher M., Ersan-Ürün, Zübeyde, Eser, Cigdem, Geiger, Horst, Geisler, Maria, Karotki, Lena, Kirn, Anette, Konantz, Judith, Konantz, Martina, Oberländer, Martina, Rudolph-Geiger, Silke, Teucke, Mathias, Osoegawa, Kazutoyo, Zhu, Baoli, Rapp, Amanda, Widaa, Sara, Langford, Cordelia, Yang, Fengtang, Carter, Nigel P., Harrow, Jennifer, Ning, Zemin, Herrero, Javier, Searle, Steve M. J., Enright, Anton, Geisler, Robert, Plasterk, Ronald H. A., Lee, Charles, Westerfield, Monte, de Jong, Pieter J., Zon, Leonard I., Postlethwait, John H., Nüsslein-Volhard, Christiane, Hubbard, Tim J. P., Crollius, Hugues Roest, Rogers, Jane, and Stemple, Derek L.
- Published
- 2013
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85. Reference genome and demographic history of the most endangered marine mammal, the vaquita
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Morin, Phillip A., primary, Archer, Frederick I., additional, Avila, Catherine D., additional, Balacco, Jennifer R., additional, Bukhman, Yury V., additional, Chow, William, additional, Fedrigo, Olivier, additional, Formenti, Giulio, additional, Fronczek, Julie A., additional, Fungtammasan, Arkarachai, additional, Gulland, Frances M. D., additional, Haase, Bettina, additional, Peter Heide‐Jorgensen, Mads, additional, Houck, Marlys L., additional, Howe, Kerstin, additional, Misuraca, Ann C., additional, Mountcastle, Jacquelyn, additional, Musser, Whitney, additional, Paez, Sadye, additional, Pelan, Sarah, additional, Phillippy, Adam, additional, Rhie, Arang, additional, Robinson, Jacqueline, additional, Rojas‐Bracho, Lorenzo, additional, Rowles, Teri K., additional, Ryder, Oliver A., additional, Smith, Cynthia R., additional, Stevenson, Sacha, additional, Taylor, Barbara L., additional, Teilmann, Jonas, additional, Torrance, James, additional, Wells, Randall S., additional, Westgate, Andrew J., additional, and Jarvis, Erich D., additional
- Published
- 2020
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86. An improved pig reference genome sequence to enable pig genetics and genomics research
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Warr, Amanda, primary, Affara, Nabeel, primary, Aken, Bronwen, primary, Beiki, Hamid, primary, Bickhart, Derek M, primary, Billis, Konstantinos, primary, Chow, William, primary, Eory, Lel, primary, Finlayson, Heather A, primary, Flicek, Paul, primary, Girón, Carlos G, primary, Griffin, Darren K, primary, Hall, Richard, primary, Hannum, Greg, primary, Hourlier, Thibaut, primary, Howe, Kerstin, primary, Hume, David A, primary, Izuogu, Osagie, primary, Kim, Kristi, primary, Koren, Sergey, primary, Liu, Haibou, primary, Manchanda, Nancy, primary, Martin, Fergal J, primary, Nonneman, Dan J, primary, O'Connor, Rebecca E, primary, Phillippy, Adam M, primary, Rohrer, Gary A, primary, Rosen, Benjamin D, primary, Rund, Laurie A, primary, Sargent, Carole A, primary, Schook, Lawrence B, primary, Schroeder, Steven G, primary, Schwartz, Ariel S, primary, Skinner, Ben M, primary, Talbot, Richard, primary, Tseng, Elizabeth, primary, Tuggle, Christopher K, primary, Watson, Mick, primary, Smith, Timothy P L, primary, and Archibald, Alan L, primary
- Published
- 2020
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87. Towards complete and error-free genome assemblies of all vertebrate species
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Rhie, Arang, primary, McCarthy, Shane A., additional, Fedrigo, Olivier, additional, Damas, Joana, additional, Formenti, Giulio, additional, Koren, Sergey, additional, Uliano-Silva, Marcela, additional, Chow, William, additional, Fungtammasan, Arkarachai, additional, Gedman, Gregory L., additional, Cantin, Lindsey J., additional, Thibaud-Nissen, Francoise, additional, Haggerty, Leanne, additional, Lee, Chul, additional, Ko, Byung June, additional, Kim, Juwan, additional, Bista, Iliana, additional, Smith, Michelle, additional, Haase, Bettina, additional, Mountcastle, Jacquelyn, additional, Winkler, Sylke, additional, Paez, Sadye, additional, Howard, Jason, additional, Vernes, Sonja C., additional, Lama, Tanya M., additional, Grutzner, Frank, additional, Warren, Wesley C., additional, Balakrishnan, Christopher, additional, Burt, Dave, additional, George, Julia M., additional, Biegler, Mathew, additional, Iorns, David, additional, Digby, Andrew, additional, Eason, Daryl, additional, Edwards, Taylor, additional, Wilkinson, Mark, additional, Turner, George, additional, Meyer, Axel, additional, Kautt, Andreas F., additional, Franchini, Paolo, additional, Detrich, H William, additional, Svardal, Hannes, additional, Wagner, Maximilian, additional, Naylor, Gavin J.P., additional, Pippel, Martin, additional, Malinsky, Milan, additional, Mooney, Mark, additional, Simbirsky, Maria, additional, Hannigan, Brett T., additional, Pesout, Trevor, additional, Houck, Marlys, additional, Misuraca, Ann, additional, Kingan, Sarah B., additional, Hall, Richard, additional, Kronenberg, Zev, additional, Korlach, Jonas, additional, Sović, Ivan, additional, Dunn, Christopher, additional, Ning, Zemin, additional, Hastie, Alex, additional, Lee, Joyce, additional, Selvaraj, Siddarth, additional, Green, Richard E., additional, Putnam, Nicholas H., additional, Ghurye, Jay, additional, Garrison, Erik, additional, Sims, Ying, additional, Collins, Joanna, additional, Pelan, Sarah, additional, Torrance, James, additional, Tracey, Alan, additional, Wood, Jonathan, additional, Guan, Dengfeng, additional, London, Sarah E., additional, Clayton, David F., additional, Mello, Claudio V., additional, Friedrich, Samantha R., additional, Lovell, Peter V., additional, Osipova, Ekaterina, additional, Al-Ajli, Farooq O., additional, Secomandi, Simona, additional, Kim, Heebal, additional, Theofanopoulou, Constantina, additional, Zhou, Yang, additional, Harris, Robert S., additional, Makova, Kateryna D., additional, Medvedev, Paul, additional, Hoffman, Jinna, additional, Masterson, Patrick, additional, Clark, Karen, additional, Martin, Fergal, additional, Howe, Kevin, additional, Flicek, Paul, additional, Walenz, Brian P., additional, Kwak, Woori, additional, Clawson, Hiram, additional, Diekhans, Mark, additional, Nassar, Luis, additional, Paten, Benedict, additional, Kraus, Robert H.S., additional, Lewin, Harris, additional, Crawford, Andrew J., additional, Gilbert, M. Thomas P., additional, Zhang, Guojie, additional, Venkatesh, Byrappa, additional, Murphy, Robert W., additional, Koepfli, Klaus-Peter, additional, Shapiro, Beth, additional, Johnson, Warren E., additional, Di Palma, Federica, additional, Margues-Bonet, Tomas, additional, Teeling, Emma C., additional, Warnow, Tandy, additional, Graves, Jennifer Marshall, additional, Ryder, Oliver A., additional, Hausler, David, additional, O’Brien, Stephen J., additional, Howe, Kerstin, additional, Myers, Eugene W., additional, Durbin, Richard, additional, Phillippy, Adam M., additional, and Jarvis, Erich D., additional
- Published
- 2020
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88. MP55-08 FEASIBILITY OF FINDING CIRCULATING TUMORS CELLS AND ASSIGNING PD-L1 RECEPTOR STATUS USING SINGLE-CELL TECHNOLOGY COMBINED WITH CELSEE GENESIS SYSTEM
- Author
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Alanee*, Shaheen, primary, Sharma, Vishal, additional, Chow, William, additional, and Patterson, Bruce, additional
- Published
- 2020
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89. Feasibility of finding circulating tumors cells and assigning PD-L1 receptor status using single-cell technology combined with Celsee Genesis system.
- Author
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Alanee, Shaheen Riadh, primary, Sharma, Vishal, additional, Chow, William, additional, and Patterson, Bruce Kendrick, additional
- Published
- 2020
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90. Genomic Organization and Evolution of the Vomeronasal Type 2 Receptor-Like (OlfC) Gene Clusters in Atlantic Salmon, Salmo salar
- Author
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Johnstone, Kimberley A., Ciborowski, Kate L., Lubieniecki, Krzysztof P., Chow, William, Phillips, Ruth B., Koop, Ben F., Jordan, William C., and Davidson, William S.
- Published
- 2009
91. MOESM2 of Birth, expansion, and death of VCY-containing palindromes on the human Y chromosome
- Author
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Wentao Shi, Massaia, Andrea, Louzada, Sandra, Handsaker, Juliet, Chow, William, McCarthy, Shane, Collins, Joanna, Hallast, Pille, Howe, Kerstin, Church, Deanna, Fengtang Yang, Yali Xue, and Tyler-Smith, Chris
- Abstract
Additional file 2: Supplementary notes for breakpoint identification. (PDF 4747 kb)
- Published
- 2019
- Full Text
- View/download PDF
92. Reversible Cerebral Vasoconstriction in Spontaneous Intracranial Hypotension
- Author
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Schievink, Wouter I., Maya, M. Marcel, Chow, William, and Louy, Charles
- Published
- 2007
93. high-quality genome and comparison of short- versus long-read transcriptome of the palaearctic duck Aythya fuligula (tufted duck).
- Author
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Mueller, Ralf C, Ellström, Patrik, Howe, Kerstin, Uliano-Silva, Marcela, Kuo, Richard I, Miedzinska, Katarzyna, Warr, Amanda, Fedrigo, Olivier, Haase, Bettina, Mountcastle, Jacquelyn, Chow, William, Torrance, James, Wood, Jonathan M D, Järhult, Josef D, Naguib, Mahmoud M, Olsen, Björn, Jarvis, Erich D, Smith, Jacqueline, Eöry, Lél, and Kraus, Robert H S
- Subjects
PLANT chromosomes ,AVIAN influenza A virus ,AVIAN influenza ,SEX chromosomes ,GENOMES ,DUCK plague ,COMPLEMENTARY DNA - Abstract
Background The tufted duck is a non-model organism that experiences high mortality in highly pathogenic avian influenza outbreaks. It belongs to the same bird family (Anatidae) as the mallard, one of the best-studied natural hosts of low-pathogenic avian influenza viruses. Studies in non-model bird species are crucial to disentangle the role of the host response in avian influenza virus infection in the natural reservoir. Such endeavour requires a high-quality genome assembly and transcriptome. Findings This study presents the first high-quality, chromosome-level reference genome assembly of the tufted duck using the Vertebrate Genomes Project pipeline. We sequenced RNA (complementary DNA) from brain, ileum, lung, ovary, spleen, and testis using Illumina short-read and Pacific Biosciences long-read sequencing platforms, which were used for annotation. We found 34 autosomes plus Z and W sex chromosomes in the curated genome assembly, with 99.6% of the sequence assigned to chromosomes. Functional annotation revealed 14,099 protein-coding genes that generate 111,934 transcripts, which implies a mean of 7.9 isoforms per gene. We also identified 246 small RNA families. Conclusions This annotated genome contributes to continuing research into the host response in avian influenza virus infections in a natural reservoir. Our findings from a comparison between short-read and long-read reference transcriptomics contribute to a deeper understanding of these competing options. In this study, both technologies complemented each other. We expect this annotation to be a foundation for further comparative and evolutionary genomic studies, including many waterfowl relatives with differing susceptibilities to avian influenza viruses. [ABSTRACT FROM AUTHOR]
- Published
- 2021
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94. Facing in is not general to all gulls nesting on cliffs
- Author
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Burtt, Edward H., Chow, William, and New York Botanical Garden, LuEsther T. Mertz Library
- Published
- 1983
95. Genomic organization and evolution of the Atlantic salmon hemoglobin repertoire
- Author
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Quinn, Nicole L, Boroevich, Keith A, Lubieniecki, Krzysztof P, Chow, William, Davidson, Evelyn A, Phillips, Ruth B, Koop, Ben F, and Davidson, William S
- Published
- 2010
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96. A Comparison of Some Omnibus Monitoring Schemes
- Author
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Chow, William, primary and Srivastava, Muni S., additional
- Published
- 1994
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97. Peer review of 'Whole genome and transcriptome maps of the entirely black native Korean chicken breed Yeonsan Ogye'
- Author
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Chow, William
- Abstract
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.
- Published
- 2018
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98. The effects of macroprudential policy on Hong Kong’s housing market: a multivariate ordered probit-augmented vector autoregressive approach
- Author
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Chow, William W., primary and Fung, Michael K., additional
- Published
- 2019
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- View/download PDF
99. Telomere-to-telomere assembly of a complete human X chromosome
- Author
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Miga, Karen H., primary, Koren, Sergey, additional, Rhie, Arang, additional, Vollger, Mitchell R., additional, Gershman, Ariel, additional, Bzikadze, Andrey, additional, Brooks, Shelise, additional, Howe, Edmund, additional, Porubsky, David, additional, Logsdon, Glennis A., additional, Schneider, Valerie A., additional, Potapova, Tamara, additional, Wood, Jonathan, additional, Chow, William, additional, Armstrong, Joel, additional, Fredrickson, Jeanne, additional, Pak, Evgenia, additional, Tigyi, Kristof, additional, Kremitzki, Milinn, additional, Markovic, Christopher, additional, Maduro, Valerie, additional, Dutra, Amalia, additional, Bouffard, Gerard G., additional, Chang, Alexander M., additional, Hansen, Nancy F., additional, Thibaud-Nissen, Françoisen, additional, Schmitt, Anthony D., additional, Belton, Jon-Matthew, additional, Selvaraj, Siddarth, additional, Dennis, Megan Y., additional, Soto, Daniela C., additional, Sahasrabudhe, Ruta, additional, Kaya, Gulhan, additional, Quick, Josh, additional, Loman, Nicholas J., additional, Holmes, Nadine, additional, Loose, Matthew, additional, Surti, Urvashi, additional, Risques, Rosa ana, additional, Graves Lindsay, Tina A., additional, Fulton, Robert, additional, Hall, Ira, additional, Paten, Benedict, additional, Howe, Kerstin, additional, Timp, Winston, additional, Young, Alice, additional, Mullikin, James C., additional, Pevzner, Pavel A., additional, Gerton, Jennifer L., additional, Sullivan, Beth A., additional, Eichler, Evan E., additional, and Phillippy, Adam M., additional
- Published
- 2019
- Full Text
- View/download PDF
100. An improved pig reference genome sequence to enable pig genetics and genomics research
- Author
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Warr, Amanda, primary, Affara, Nabeel, additional, Aken, Bronwen, additional, Beiki, H., additional, Bickhart, Derek M., additional, Billis, Konstantinos, additional, Chow, William, additional, Eory, Lel, additional, Finlayson, Heather A., additional, Flicek, Paul, additional, Girón, Carlos G., additional, Griffin, Darren K., additional, Hall, Richard, additional, Hannum, Greg, additional, Hourlier, Thibaut, additional, Howe, Kerstin, additional, Hume, David A., additional, Izuogu, Osagie, additional, Kim, Kristi, additional, Koren, Sergey, additional, Liu, Haibou, additional, Manchanda, Nancy, additional, Martin, Fergal J., additional, Nonneman, Dan J., additional, O’Connor, Rebecca E., additional, Phillippy, Adam M., additional, Rohrer, Gary A., additional, Rosen, Benjamin D., additional, Rund, Laurie A., additional, Sargent, Carole A., additional, Schook, Lawrence B., additional, Schroeder, Steven G., additional, Schwartz, Ariel S., additional, Skinner, Ben M., additional, Talbot, Richard, additional, Tseng, Elizabeth, additional, Tuggle, Christopher K., additional, Watson, Mick, additional, Smith, Timothy P. L., additional, and Archibald, Alan L., additional
- Published
- 2019
- Full Text
- View/download PDF
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