Goods-thinking vs. tree-thinking: Finding a place for mobile genetic elements

gan McInerney, James, Cummins, Carla, Haggerty, Leanne
Cyhoeddwyd 2011

A Pluralistic Account of Homology: Adapting the Models to the Data

gan Haggerty, Leanne S., Jachiet, Pierre-Alain, Hanage, William P., Fitzpatrick, David A., Lopez, Philippe, O’Connell, Mary J., Pisani, Davide, Wilkinson, Mark, Bapteste, Eric, McInerney, James O.
Cyhoeddwyd 2014

First Complete Providencia rettgeri Genome Sequence, the NDM-1-Producing Clinical Strain RB151

gan Marquez-Ortiz, R. Alejandro, Haggerty, Leanne, Sim, Eby M., Duarte, Carolina, Castro-Cardozo, Betsy E., Beltran, Mauricio, Saavedra, Sandra, Vanegas, Natasha, Escobar-Perez, Javier, Petty, Nicola K.
Cyhoeddwyd 2017

A chromosome-level assembly of the Atlantic herring genome—detection of a supergene and other signals of selection

gan Pettersson, Mats E., Rochus, Christina M., Han, Fan, Chen, Junfeng, Hill, Jason, Wallerman, Ola, Fan, Guangyi, Hong, Xiaoning, Xu, Qiwu, Zhang, He, Liu, Shanshan, Liu, Xin, Haggerty, Leanne, Hunt, Toby, Martin, Fergal J., Flicek, Paul, Bunikis, Ignas, Folkvord, Arild, Andersson, Leif
Cyhoeddwyd 2019

Genomic Epidemiology of NDM-1-Encoding Plasmids in Latin American Clinical Isolates Reveals Insights into the Evolution of Multidrug Resistance

gan Marquez-Ortiz, Ricaurte Alejandro, Haggerty, Leanne, Olarte, Narda, Duarte, Carolina, Garza-Ramos, Ulises, Silva-Sanchez, Jesus, Castro, Betsy E., Sim, Eby M., Beltran, Mauricio, Moncada, María V., Valderrama, Alberto, Castellanos, Jaime E., Charles, Ian G., Vanegas, Natasha, Escobar-Perez, Javier, Petty, Nicola K.
Cyhoeddwyd 2017

Genomics of cold adaptations in the Antarctic notothenioid fish radiation

gan 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
Cyhoeddwyd 2023

The genome sequence of the brown trout, Salmo trutta Linnaeus 1758

gan 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
Cyhoeddwyd 2021

Comparative evolutionary analyses of eight whitefly Bemisia tabaci sensu lato genomes: cryptic species, agricultural pests and plant-virus vectors

gan Campbell, Lahcen I., Nwezeobi, Joachim, van Brunschot, Sharon L., Kaweesi, Tadeo, Seal, Susan E., Swamy, Rekha A. R., Namuddu, Annet, Maslen, Gareth L., Mugerwa, Habibu, Armean, Irina M., Haggerty, Leanne, Martin, Fergal J., Malka, Osnat, Santos-Garcia, Diego, Juravel, Ksenia, Morin, Shai, Stephens, Michael E., Muhindira, Paul Visendi, Kersey, Paul J., Maruthi, M. N., Omongo, Christopher A., Navas-Castillo, Jesús, Fiallo-Olivé, Elvira, Mohammed, Ibrahim Umar, Wang, Hua-Ling, Onyeka, Joseph, Alicai, Titus, Colvin, John
Cyhoeddwyd 2023

Population genomics of the critically endangered kākāpō

gan Dussex, Nicolas, van der Valk, Tom, Morales, Hernán E., Wheat, Christopher W., Díez-del-Molino, David, von Seth, Johanna, Foster, Yasmin, Kutschera, Verena E., Guschanski, Katerina, Rhie, Arang, Phillippy, Adam M., Korlach, Jonas, Howe, Kerstin, Chow, William, Pelan, Sarah, Mendes Damas, Joanna D., Lewin, Harris A., Hastie, Alex R., Formenti, Giulio, Fedrigo, Olivier, Guhlin, Joseph, Harrop, Thomas W.R., Le Lec, Marissa F., Dearden, Peter K., Haggerty, Leanne, Martin, Fergal J., Kodali, Vamsi, Thibaud-Nissen, Françoise, Iorns, David, Knapp, Michael, Gemmell, Neil J., Robertson, Fiona, Moorhouse, Ron, Digby, Andrew, Eason, Daryl, Vercoe, Deidre, Howard, Jason, Jarvis, Erich D., Robertson, Bruce C., Dalén, Love
Cyhoeddwyd 2021

Ensembl 2018

gan Zerbino, Daniel R, Achuthan, Premanand, Akanni, Wasiu, Amode, M Ridwan, Barrell, Daniel, Bhai, Jyothish, Billis, Konstantinos, Cummins, Carla, Gall, Astrid, Girón, Carlos García, Gil, Laurent, Gordon, Leo, Haggerty, Leanne, Haskell, Erin, Hourlier, Thibaut, Izuogu, Osagie G, Janacek, Sophie H, Juettemann, Thomas, To, Jimmy Kiang, Laird, Matthew R, Lavidas, Ilias, Liu, Zhicheng, Loveland, Jane E, Maurel, Thomas, McLaren, William, Moore, Benjamin, Mudge, Jonathan, Murphy, Daniel N, Newman, Victoria, Nuhn, Michael, Ogeh, Denye, Ong, Chuang Kee, Parker, Anne, Patricio, Mateus, Riat, Harpreet Singh, Schuilenburg, Helen, Sheppard, Dan, Sparrow, Helen, Taylor, Kieron, Thormann, Anja, Vullo, Alessandro, Walts, Brandon, Zadissa, Amonida, Frankish, Adam, Hunt, Sarah E, Kostadima, Myrto, Langridge, Nicholas, Martin, Fergal J, Muffato, Matthieu, Perry, Emily, Ruffier, Magali, Staines, Dan M, Trevanion, Stephen J, Aken, Bronwen L, Cunningham, Fiona, Yates, Andrew, Flicek, Paul
Cyhoeddwyd 2018

Ensembl 2019

gan Cunningham, Fiona, Achuthan, Premanand, Akanni, Wasiu, Allen, James, Amode, M Ridwan, Armean, Irina M, Bennett, Ruth, Bhai, Jyothish, Billis, Konstantinos, Boddu, Sanjay, Cummins, Carla, Davidson, Claire, Dodiya, Kamalkumar Jayantilal, Gall, Astrid, Girón, Carlos García, Gil, Laurent, Grego, Tiago, Haggerty, Leanne, Haskell, Erin, Hourlier, Thibaut, Izuogu, Osagie G, Janacek, Sophie H, Juettemann, Thomas, Kay, Mike, Laird, Matthew R, Lavidas, Ilias, Liu, Zhicheng, Loveland, Jane E, Marugán, José C, Maurel, Thomas, McMahon, Aoife C, Moore, Benjamin, Morales, Joannella, Mudge, Jonathan M, Nuhn, Michael, Ogeh, Denye, Parker, Anne, Parton, Andrew, Patricio, Mateus, Abdul Salam, Ahamed Imran, Schmitt, Bianca M, Schuilenburg, Helen, Sheppard, Dan, Sparrow, Helen, Stapleton, Eloise, Szuba, Marek, Taylor, Kieron, Threadgold, Glen, Thormann, Anja, Vullo, Alessandro, Walts, Brandon, Winterbottom, Andrea, Zadissa, Amonida, Chakiachvili, Marc, Frankish, Adam, Hunt, Sarah E, Kostadima, Myrto, Langridge, Nick, Martin, Fergal J, Muffato, Matthieu, Perry, Emily, Ruffier, Magali, Staines, Daniel M, Trevanion, Stephen J, Aken, Bronwen L, Yates, Andrew D, Zerbino, Daniel R, Flicek, Paul
Cyhoeddwyd 2019

Ensembl 2020

gan Yates, Andrew D, Achuthan, Premanand, Akanni, Wasiu, Allen, James, Allen, Jamie, Alvarez-Jarreta, Jorge, Amode, M Ridwan, Armean, Irina M, Azov, Andrey G, Bennett, Ruth, Bhai, Jyothish, Billis, Konstantinos, Boddu, Sanjay, Marugán, José Carlos, Cummins, Carla, Davidson, Claire, Dodiya, Kamalkumar, Fatima, Reham, Gall, Astrid, Giron, Carlos Garcia, Gil, Laurent, Grego, Tiago, Haggerty, Leanne, Haskell, Erin, Hourlier, Thibaut, Izuogu, Osagie G, Janacek, Sophie H, Juettemann, Thomas, Kay, Mike, Lavidas, Ilias, Le, Tuan, Lemos, Diana, Martinez, Jose Gonzalez, Maurel, Thomas, McDowall, Mark, McMahon, Aoife, Mohanan, Shamika, Moore, Benjamin, Nuhn, Michael, Oheh, Denye N, Parker, Anne, Parton, Andrew, Patricio, Mateus, Sakthivel, Manoj Pandian, Abdul Salam, Ahamed Imran, Schmitt, Bianca M, Schuilenburg, Helen, Sheppard, Dan, Sycheva, Mira, Szuba, Marek, Taylor, Kieron, Thormann, Anja, Threadgold, Glen, Vullo, Alessandro, Walts, Brandon, Winterbottom, Andrea, Zadissa, Amonida, Chakiachvili, Marc, Flint, Bethany, Frankish, Adam, Hunt, Sarah E, IIsley, Garth, Kostadima, Myrto, Langridge, Nick, Loveland, Jane E, Martin, Fergal J, Morales, Joannella, Mudge, Jonathan M, Muffato, Matthieu, Perry, Emily, Ruffier, Magali, Trevanion, Stephen J, Cunningham, Fiona, Howe, Kevin L, Zerbino, Daniel R, Flicek, Paul
Cyhoeddwyd 2020

Ensembl 2021

gan Howe, Kevin L, Achuthan, Premanand, Allen, James, Allen, Jamie, Alvarez-Jarreta, Jorge, Amode, M Ridwan, Armean, Irina M, Azov, Andrey G, Bennett, Ruth, Bhai, Jyothish, Billis, Konstantinos, Boddu, Sanjay, Charkhchi, Mehrnaz, Cummins, Carla, Da Rin Fioretto, Luca, Davidson, Claire, Dodiya, Kamalkumar, El Houdaigui, Bilal, Fatima, Reham, Gall, Astrid, Garcia Giron, Carlos, Grego, Tiago, Guijarro-Clarke, Cristina, Haggerty, Leanne, Hemrom, Anmol, Hourlier, Thibaut, Izuogu, Osagie G, Juettemann, Thomas, Kaikala, Vinay, Kay, Mike, Lavidas, Ilias, Le, Tuan, Lemos, Diana, Gonzalez Martinez, Jose, Marugán, José Carlos, Maurel, Thomas, McMahon, Aoife C, Mohanan, Shamika, Moore, Benjamin, Muffato, Matthieu, Oheh, Denye N, Paraschas, Dimitrios, Parker, Anne, Parton, Andrew, Prosovetskaia, Irina, Sakthivel, Manoj P, Salam, Ahamed I Abdul, Schmitt, Bianca M, Schuilenburg, Helen, Sheppard, Dan, Steed, Emily, Szpak, Michal, Szuba, Marek, Taylor, Kieron, Thormann, Anja, Threadgold, Glen, Walts, Brandon, Winterbottom, Andrea, Chakiachvili, Marc, Chaubal, Ameya, De Silva, Nishadi, Flint, Bethany, Frankish, Adam, Hunt, Sarah E, IIsley, Garth R, Langridge, Nick, Loveland, Jane E, Martin, Fergal J, Mudge, Jonathan M, Morales, Joanella, Perry, Emily, Ruffier, Magali, Tate, John, Thybert, David, Trevanion, Stephen J, Cunningham, Fiona, Yates, Andrew D, Zerbino, Daniel R, Flicek, Paul
Cyhoeddwyd 2020

Ensembl 2022

gan Cunningham, Fiona, Allen, James E, Allen, Jamie, Alvarez-Jarreta, Jorge, Amode, M Ridwan, Armean, Irina M, Austine-Orimoloye, Olanrewaju, Azov, Andrey G, Barnes, If, Bennett, Ruth, Berry, Andrew, Bhai, Jyothish, Bignell, Alexandra, Billis, Konstantinos, Boddu, Sanjay, Brooks, Lucy, Charkhchi, Mehrnaz, Cummins, Carla, Da Rin Fioretto, Luca, Davidson, Claire, Dodiya, Kamalkumar, Donaldson, Sarah, El Houdaigui, Bilal, El Naboulsi, Tamara, Fatima, Reham, Giron, Carlos Garcia, Genez, Thiago, Martinez, Jose Gonzalez, Guijarro-Clarke, Cristina, Gymer, Arthur, Hardy, Matthew, Hollis, Zoe, Hourlier, Thibaut, Hunt, Toby, Juettemann, Thomas, Kaikala, Vinay, Kay, Mike, Lavidas, Ilias, Le, Tuan, Lemos, Diana, Marugán, José Carlos, Mohanan, Shamika, Mushtaq, Aleena, Naven, Marc, Ogeh, Denye N, Parker, Anne, Parton, Andrew, Perry, Malcolm, Piližota, Ivana, Prosovetskaia, Irina, Sakthivel, Manoj Pandian, Salam, Ahamed Imran Abdul, Schmitt, Bianca M, Schuilenburg, Helen, Sheppard, Dan, Pérez-Silva, José G, Stark, William, Steed, Emily, Sutinen, Kyösti, Sukumaran, Ranjit, Sumathipala, Dulika, Suner, Marie-Marthe, Szpak, Michal, Thormann, Anja, Tricomi, Francesca Floriana, Urbina-Gómez, David, Veidenberg, Andres, Walsh, Thomas A, Walts, Brandon, Willhoft, Natalie, Winterbottom, Andrea, Wass, Elizabeth, Chakiachvili, Marc, Flint, Bethany, Frankish, Adam, Giorgetti, Stefano, Haggerty, Leanne, Hunt, Sarah E, IIsley, Garth R, Loveland, Jane E, Martin, Fergal J, Moore, Benjamin, Mudge, Jonathan M, Muffato, Matthieu, Perry, Emily, Ruffier, Magali, Tate, John, Thybert, David, Trevanion, Stephen J, Dyer, Sarah, Harrison, Peter W, Howe, Kevin L, Yates, Andrew D, Zerbino, Daniel R, Flicek, Paul
Cyhoeddwyd 2021

Ensembl 2023

gan Martin, Fergal J, Amode, M Ridwan, Aneja, Alisha, Austine-Orimoloye, Olanrewaju, Azov, Andrey G, Barnes, If, Becker, Arne, Bennett, Ruth, Berry, Andrew, Bhai, Jyothish, Bhurji, Simarpreet Kaur, Bignell, Alexandra, Boddu, Sanjay, Branco Lins, Paulo R, Brooks, Lucy, Ramaraju, Shashank Budhanuru, Charkhchi, Mehrnaz, Cockburn, Alexander, Da Rin Fiorretto, Luca, Davidson, Claire, Dodiya, Kamalkumar, Donaldson, Sarah, El Houdaigui, Bilal, El Naboulsi, Tamara, Fatima, Reham, Giron, Carlos Garcia, Genez, Thiago, Ghattaoraya, Gurpreet S, Martinez, Jose Gonzalez, Guijarro, Cristi, Hardy, Matthew, Hollis, Zoe, Hourlier, Thibaut, Hunt, Toby, Kay, Mike, Kaykala, Vinay, Le, Tuan, Lemos, Diana, Marques-Coelho, Diego, Marugán, José Carlos, Merino, Gabriela Alejandra, Mirabueno, Louisse Paola, Mushtaq, Aleena, Hossain, Syed Nakib, Ogeh, Denye N, Sakthivel, Manoj Pandian, Parker, Anne, Perry, Malcolm, Piližota, Ivana, Prosovetskaia, Irina, Pérez-Silva, José G, Salam, Ahamed Imran Abdul, Saraiva-Agostinho, Nuno, Schuilenburg, Helen, Sheppard, Dan, Sinha, Swati, Sipos, Botond, Stark, William, Steed, Emily, Sukumaran, Ranjit, Sumathipala, Dulika, Suner, Marie-Marthe, Surapaneni, Likhitha, Sutinen, Kyösti, Szpak, Michal, Tricomi, Francesca Floriana, Urbina-Gómez, David, Veidenberg, Andres, Walsh, Thomas A, Walts, Brandon, Wass, Elizabeth, Willhoft, Natalie, Allen, Jamie, Alvarez-Jarreta, Jorge, Chakiachvili, Marc, Flint, Bethany, Giorgetti, Stefano, Haggerty, Leanne, Ilsley, Garth R, Loveland, Jane E, Moore, Benjamin, Mudge, Jonathan M, Tate, John, Thybert, David, Trevanion, Stephen J, Winterbottom, Andrea, Frankish, Adam, Hunt, Sarah E, Ruffier, Magali, Cunningham, Fiona, Dyer, Sarah, Finn, Robert D, Howe, Kevin L, Harrison, Peter W, Yates, Andrew D, Flicek, Paul
Cyhoeddwyd 2022

A draft human pangenome reference

gan Liao, Wen-Wei, Asri, Mobin, Ebler, Jana, Doerr, Daniel, Haukness, Marina, Hickey, Glenn, Lu, Shuangjia, Lucas, Julian K., Monlong, Jean, Abel, Haley J., Buonaiuto, Silvia, Chang, Xian H., Cheng, Haoyu, Chu, Justin, Colonna, Vincenza, Eizenga, Jordan M., Feng, Xiaowen, Fischer, Christian, Fulton, Robert S., Garg, Shilpa, Groza, Cristian, Guarracino, Andrea, Harvey, William T., Heumos, Simon, Howe, Kerstin, Jain, Miten, Lu, Tsung-Yu, Markello, Charles, Martin, Fergal J., Mitchell, Matthew W., Munson, Katherine M., Mwaniki, Moses Njagi, Novak, Adam M., Olsen, Hugh E., Pesout, Trevor, Porubsky, David, Prins, Pjotr, Sibbesen, Jonas A., Sirén, Jouni, Tomlinson, Chad, Villani, Flavia, Vollger, Mitchell R., Antonacci-Fulton, Lucinda L., Baid, Gunjan, Baker, Carl A., Belyaeva, Anastasiya, Billis, Konstantinos, Carroll, Andrew, Chang, Pi-Chuan, Cody, Sarah, Cook, Daniel E., Cook-Deegan, Robert M., Cornejo, Omar E., Diekhans, Mark, Ebert, Peter, Fairley, Susan, Fedrigo, Olivier, Felsenfeld, Adam L., Formenti, Giulio, Frankish, Adam, Gao, Yan, Garrison, Nanibaa’ A., Giron, Carlos Garcia, Green, Richard E., Haggerty, Leanne, Hoekzema, Kendra, Hourlier, Thibaut, Ji, Hanlee P., Kenny, Eimear E., Koenig, Barbara A., Kolesnikov, Alexey, Korbel, Jan O., Kordosky, Jennifer, Koren, Sergey, Lee, HoJoon, Lewis, Alexandra P., Magalhães, Hugo, Marco-Sola, Santiago, Marijon, Pierre, McCartney, Ann, McDaniel, Jennifer, Mountcastle, Jacquelyn, Nattestad, Maria, Nurk, Sergey, Olson, Nathan D., Popejoy, Alice B., Puiu, Daniela, Rautiainen, Mikko, Regier, Allison A., Rhie, Arang, Sacco, Samuel, Sanders, Ashley D., Schneider, Valerie A., Schultz, Baergen I., Shafin, Kishwar, Smith, Michael W., Sofia, Heidi J., Abou Tayoun, Ahmad N., Thibaud-Nissen, Françoise, Tricomi, Francesca Floriana, Wagner, Justin, Walenz, Brian, Wood, Jonathan M. D., Zimin, Aleksey V., Bourque, Guillaume, Chaisson, Mark J. P., Flicek, Paul, Phillippy, Adam M., Zook, Justin M., Eichler, Evan E., Haussler, David, Wang, Ting, Jarvis, Erich D., Miga, Karen H., Garrison, Erik, Marschall, Tobias, Hall, Ira M., Li, Heng, Paten, Benedict
Cyhoeddwyd 2023

Towards complete and error-free genome assemblies of all vertebrate species

gan Rhie, Arang, McCarthy, Shane A., Fedrigo, Olivier, Damas, Joana, Formenti, Giulio, Koren, Sergey, Uliano-Silva, Marcela, Chow, William, Fungtammasan, Arkarachai, Kim, Juwan, Lee, Chul, Ko, Byung June, Chaisson, Mark, Gedman, Gregory L., Cantin, Lindsey J., Thibaud-Nissen, Francoise, Haggerty, Leanne, Bista, Iliana, Smith, Michelle, Haase, Bettina, Mountcastle, Jacquelyn, Winkler, Sylke, Paez, Sadye, Howard, Jason, Vernes, Sonja C., Lama, Tanya M., Grutzner, Frank, Warren, Wesley C., Balakrishnan, Christopher N., Burt, Dave, George, Julia M., Biegler, Matthew T., Iorns, David, Digby, Andrew, Eason, Daryl, Robertson, Bruce, Edwards, Taylor, Wilkinson, Mark, Turner, George, Meyer, Axel, Kautt, Andreas F., Franchini, Paolo, Detrich, H. William, Svardal, Hannes, Wagner, Maximilian, Naylor, Gavin J. P., Pippel, Martin, Malinsky, Milan, Mooney, Mark, Simbirsky, Maria, Hannigan, Brett T., Pesout, Trevor, Houck, Marlys, Misuraca, Ann, Kingan, Sarah B., Hall, Richard, Kronenberg, Zev, Sović, Ivan, Dunn, Christopher, Ning, Zemin, Hastie, Alex, Lee, Joyce, Selvaraj, Siddarth, Green, Richard E., Putnam, Nicholas H., Gut, Ivo, Ghurye, Jay, Garrison, Erik, Sims, Ying, Collins, Joanna, Pelan, Sarah, Torrance, James, Tracey, Alan, Wood, Jonathan, Dagnew, Robel E., Guan, Dengfeng, London, Sarah E., Clayton, David F., Mello, Claudio V., Friedrich, Samantha R., Lovell, Peter V., Osipova, Ekaterina, Al-Ajli, Farooq O., Secomandi, Simona, Kim, Heebal, Theofanopoulou, Constantina, Hiller, Michael, Zhou, Yang, Harris, Robert S., Makova, Kateryna D., Medvedev, Paul, Hoffman, Jinna, Masterson, Patrick, Clark, Karen, Martin, Fergal, Howe, Kevin, Flicek, Paul, Walenz, Brian P., Kwak, Woori, Clawson, Hiram, Diekhans, Mark, Nassar, Luis, Paten, Benedict, Kraus, Robert H. S., Crawford, Andrew J., Gilbert, M. Thomas P., Zhang, Guojie, Venkatesh, Byrappa, Murphy, Robert W., Koepfli, Klaus-Peter, Shapiro, Beth, Johnson, Warren E., Di Palma, Federica, Marques-Bonet, Tomas, Teeling, Emma C., Warnow, Tandy, Graves, Jennifer Marshall, Ryder, Oliver A., Haussler, David, O’Brien, Stephen J., Korlach, Jonas, Lewin, Harris A., Howe, Kerstin, Myers, Eugene W., Durbin, Richard, Phillippy, Adam M., Jarvis, Erich D.
Cyhoeddwyd 2021