Identifying and removing haplotypic duplication in primary genome assemblies von Guan, Dengfeng, McCarthy, Shane A, Wood, Jonathan, Howe, Kerstin, Wang, Yadong, Durbin, Richard

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Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly von Schneider, Valerie A, Graves-Lindsay, Tina, Howe, Kerstin, Bouk, Nathan, Chen, Hsiu-Chuan, Kitts, Paul A, Murphy, Terence D, Pruitt, Kim D, Thibaud-Nissen, Françoise, Albracht, Derek, Fulton, Robert S, Kremitzki, Milinn, Magrini, Vincent, Markovic, Chris, McGrath, Sean, Steinberg, Karyn Meltz, Auger, Kate, Chow, William, Collins, Joanna, Harden, Glenn, Hubbard, Timothy, Pelan, Sarah, Simpson, Jared T, Threadgold, Glen, Torrance, James, Wood, Jonathan M, Clarke, Laura, Koren, Sergey, Boitano, Matthew, Peluso, Paul, Li, Heng, Chin, Chen-Shan, Phillippy, Adam M, Durbin, Richard, Wilson, Richard K, Flicek, Paul, Eichler, Evan E, Church, Deanna M

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Platypus and echidna genomes reveal mammalian biology and evolution von Zhou, Yang, Shearwin-Whyatt, Linda, Li, Jing, Song, Zhenzhen, Hayakawa, Takashi, Stevens, David, Fenelon, Jane C., Peel, Emma, Cheng, Yuanyuan, Pajpach, Filip, Bradley, Natasha, Suzuki, Hikoyu, Nikaido, Masato, Damas, Joana, Daish, Tasman, Perry, Tahlia, Zhu, Zexian, Geng, Yuncong, Rhie, Arang, Sims, Ying, Wood, Jonathan, Haase, Bettina, Mountcastle, Jacquelyn, Fedrigo, Olivier, Li, Qiye, Yang, Huanming, Wang, Jian, Johnston, Stephen D., Phillippy, Adam M., Howe, Kerstin, Jarvis, Erich D., Ryder, Oliver A., Kaessmann, Henrik, Donnelly, Peter, Korlach, Jonas, Lewin, Harris A., Graves, Jennifer, Belov, Katherine, Renfree, Marilyn B., Grutzner, Frank, Zhou, Qi, Zhang, Guojie

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Widespread false gene gains caused by duplication errors in genome assemblies von Ko, Byung June, Lee, Chul, Kim, Juwan, Rhie, Arang, Yoo, Dong Ahn, Howe, Kerstin, Wood, Jonathan, Cho, Seoae, Brown, Samara, Formenti, Giulio, Jarvis, Erich D., Kim, Heebal

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Structure and evolutionary history of a large family of NLR proteins in the zebrafish von Howe, Kerstin, Schiffer, Philipp H., Zielinski, Julia, Wiehe, Thomas, Laird, Gavin K., Marioni, John C., Soylemez, Onuralp, Kondrashov, Fyodor, Leptin, Maria

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Modernizing reference genome assemblies von Church, Deanna M, Schneider, Valerie A, Graves, Tina, Auger, Katherine, Cunningham, Fiona, Bouk, Nathan, Chen, Hsiu-Chuan, Agarwala, Richa, McLaren, William M, Ritchie, Graham R S, Albracht, Derek, Kremitzki, Milinn, Rock, Susan, Kotkiewicz, Holland, Kremitzki, Colin, Wollam, Aye, Trani, Lee, Fulton, Lucinda, Fulton, Robert, Matthews, Lucy, Whitehead, Siobhan, Chow, Will, Torrance, James, Dunn, Matthew, Harden, Glenn, Threadgold, Glen, Wood, Jonathan, Collins, Joanna, Heath, Paul, Griffiths, Guy, Pelan, Sarah, Grafham, Darren, Eichler, Evan E, Weinstock, George, Mardis, Elaine R, Wilson, Richard K, Howe, Kerstin, Flicek, Paul, Hubbard, Tim

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False gene and chromosome losses in genome assemblies caused by GC content variation and repeats von Kim, Juwan, Lee, Chul, Ko, Byung June, Yoo, Dong Ahn, Won, Sohyoung, Phillippy, Adam M, Fedrigo, Olivier, Zhang, Guojie, Howe, Kerstin, Wood, Jonathan, Durbin, Richard, Formenti, Giulio, Brown, Samara, Cantin, Lindsey, Mello, Claudio V, Cho, Seoae, Rhie, Arang, Kim, Heebal, Jarvis, Erich D

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Genomics of cold adaptations in the Antarctic notothenioid fish radiation von Bista, Iliana, Wood, Jonathan M. D., Desvignes, Thomas, McCarthy, Shane A., Matschiner, Michael, Ning, Zemin, Tracey, Alan, Torrance, James, Sims, Ying, Chow, William, Smith, Michelle, Oliver, Karen, Haggerty, Leanne, Salzburger, Walter, Postlethwait, John H., Howe, Kerstin, Clark, Melody S., William Detrich, H., Christina Cheng, C.-H., Miska, Eric A., Durbin, Richard

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A New Chicken Genome Assembly Provides Insight into Avian Genome Structure von Warren, Wesley C, Hillier, LaDeana W, Tomlinson, Chad, Minx, Patrick, Kremitzki, Milinn, Graves, Tina, Markovic, Chris, Bouk, Nathan, Pruitt, Kim D, Thibaud-Nissen, Francoise, Schneider, Valerie, Mansour, Tamer A, Brown, C Titus, Zimin, Aleksey, Hawken, Rachel, Abrahamsen, Mitch, Pyrkosz, Alexis B, Morisson, Mireille, Fillon, Valerie, Vignal, Alain, Chow, William, Howe, Kerstin, Fulton, Janet E, Miller, Marcia M, Lovell, Peter, Mello, Claudio V, Wirthlin, Morgan, Mason, Andrew S, Kuo, Richard, Burt, David W, Dodgson, Jerry B, Cheng, Hans H

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Taxonomy Identifiers (TaxId) for Biodiversity Genomics: a guide to getting TaxId for submission of data to public databases von Blaxter, Mark, Pauperio, Joana, Schoch, Conrad, Howe, Kerstin

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A high-quality, chromosome-level genome assembly of the Black Soldier Fly (Hermetia illucens L.) von Generalovic, Tomas N., McCarthy, Shane A., Warren, Ian A., Wood, Jonathan M. D., Torrance, James, Sims, Ying, Quail, Michael, Howe, Kerstin, Pipan, Miha, Durbin, Richard, Jiggins, Chris D.

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Construction of Whole Genomes from Scaffolds Using Single Cell Strand-Seq Data von Hills, Mark, Falconer, Ester, O'Neill, Kieran, Sanders, Ashley D., Howe, Kerstin, Guryev, Victor, Lansdorp, Peter M.

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An improved germline genome assembly for the sea lamprey Petromyzon marinus illuminates the evolution of germline-specific chromosomes von Timoshevskaya, Nataliya, Eşkut, Kaan İ., Timoshevskiy, Vladimir A., Robb, Sofia M.C., Holt, Carson, Hess, Jon E., Parker, Hugo J., Baker, Cindy F., Miller, Allison K., Saraceno, Cody, Yandell, Mark, Krumlauf, Robb, Narum, Shawn R., Lampman, Ralph T., Gemmell, Neil J., Mountcastle, Jacquelyn, Haase, Bettina, Balacco, Jennifer R., Formenti, Giulio, Pelan, Sarah, Sims, Ying, Howe, Kerstin, Fedrigo, Olivier, Jarvis, Erich D., Smith, Jeramiah J.

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The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes von Bond, Donna M., Ortega-Recalde, Oscar, Laird, Melanie K., Hayakawa, Takashi, Richardson, Kyle S., Reese, Finlay.C. B., Kyle, Bruce, McIsaac-Williams, Brooke E., Robertson, Bruce C., van Heezik, Yolanda, Adams, Amy L., Chang, Wei-Shan, Haase, Bettina, Mountcastle, Jacquelyn, Driller, Maximilian, Collins, Joanna, Howe, Kerstin, Go, Yasuhiro, Thibaud-Nissen, Francoise, Lister, Nicholas C., Waters, Paul D., Fedrigo, Olivier, Jarvis, Erich D., Gemmell, Neil J., Alexander, Alana, Hore, Timothy A.

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The gene-rich genome of the scallop Pecten maximus von Kenny, Nathan J, McCarthy, Shane A, Dudchenko, Olga, James, Katherine, Betteridge, Emma, Corton, Craig, Dolucan, Jale, Mead, Dan, Oliver, Karen, Omer, Arina D, Pelan, Sarah, Ryan, Yan, Sims, Ying, Skelton, Jason, Smith, Michelle, Torrance, James, Weisz, David, Wipat, Anil, Aiden, Erez L, Howe, Kerstin, Williams, Suzanne T

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Birth, expansion, and death of VCY-containing palindromes on the human Y chromosome von Shi, Wentao, Massaia, Andrea, Louzada, Sandra, Handsaker, Juliet, Chow, William, McCarthy, Shane, Collins, Joanna, Hallast, Pille, Howe, Kerstin, Church, Deanna M, Yang, Fengtang, Xue, Yali, Tyler-Smith, Chris

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Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates von Kikuta, Hiroshi, Laplante, Mary, Navratilova, Pavla, Komisarczuk, Anna Z, Engström, Pär G, Fredman, David, Akalin, Altuna, Caccamo, Mario, Sealy, Ian, Howe, Kerstin, Ghislain, Julien, Pezeron, Guillaume, Mourrain, Philippe, Ellingsen, Staale, Oates, Andrew C, Thisse, Christine, Thisse, Bernard, Foucher, Isabelle, Adolf, Birgit, Geling, Andrea, Lenhard, Boris, Becker, Thomas S

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The pig X and Y Chromosomes: structure, sequence, and evolution von Skinner, Benjamin M, Sargent, Carole A, Churcher, Carol, Hunt, Toby, Herrero, Javier, Loveland, Jane E, Dunn, Matt, Louzada, Sandra, Fu, Beiyuan, Chow, William, Gilbert, James, Austin-Guest, Siobhan, Beal, Kathryn, Carvalho-Silva, Denise, Cheng, William, Gordon, Daria, Grafham, Darren, Hardy, Matt, Harley, Jo, Hauser, Heidi, Howden, Philip, Howe, Kerstin, Lachani, Kim, Ellis, Peter J I, Kelly, Daniel, Kerry, Giselle, Kerwin, James, Ng, Bee Ling, Threadgold, Glen, Wileman, Thomas, Wood, Jonathan M D, Yang, Fengtang, Harrow, Jen, Affara, Nabeel A, Tyler-Smith, Chris

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An assembly line for an improved human reference genome

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A haplotype-resolved genome assembly of the Nile rat facilitates exploration of the genetic basis of diabetes von Toh, Huishi, Yang, Chentao, Formenti, Giulio, Raja, Kalpana, Yan, Lily, Tracey, Alan, Chow, William, Howe, Kerstin, Bergeron, Lucie A, Zhang, Guojie, Haase, Bettina, Mountcastle, Jacquelyn, Fedrigo, Olivier, Fogg, John, Kirilenko, Bogdan, Munegowda, Chetan, Hiller, Michael, Jain, Aashish, Kihara, Daisuke, Rhie, Arang, Phillippy, Adam M, Swanson, Scott A, Jiang, Peng, Clegg, Dennis O, Jarvis, Erich D, Thomson, James A, Stewart, Ron, Chaisson, Mark J. P, Bukhman, Yury V

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