An algorithm for automated closure during assembly

por Koren, Sergey, Miller, Jason R, Walenz, Brian P, Sutton, Granger
Publicado 2010

Predicting the Functional Effect of Amino Acid Substitutions and Indels

por Choi, Yongwook, Sims, Gregory E., Murphy, Sean, Miller, Jason R., Chan, Agnes P.
Publicado 2012

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

por Koren, Sergey, Walenz, Brian P., Berlin, Konstantin, Miller, Jason R., Bergman, Nicholas H., Phillippy, Adam M.
Publicado 2017

A host subtraction database for virus discovery in human cell line sequencing data

por Miller, Jason R., Dilley, Kari A., Harkins, Derek M., Stockwell, Timothy B., Shabman, Reed S., Sutton, Granger G.
Publicado 2019

New Assembly, Reannotation and Analysis of the Entamoeba histolytica Genome Reveal New Genomic Features and Protein Content Information

por Lorenzi, Hernan A., Puiu, Daniela, Miller, Jason R., Brinkac, Lauren M., Amedeo, Paolo, Hall, Neil, Caler, Elisabet V.
Publicado 2010

A draft genome sequence for the Ixodes scapularis cell line, ISE6

por Miller, Jason R., Koren, Sergey, Dilley, Kari A., Harkins, Derek M., Stockwell, Timothy B., Shabman, Reed S., Sutton, Granger G.
Publicado 2018

Aggressive assembly of pyrosequencing reads with mates

por Miller, Jason R., Delcher, Arthur L., Koren, Sergey, Venter, Eli, Walenz, Brian P., Brownley, Anushka, Johnson, Justin, Li, Kelvin, Mobarry, Clark, Sutton, Granger
Publicado 2008

Spatial and temporal regulation of parent-of-origin allelic expression in the endosperm

por van Ekelenburg, Yuri S, Hornslien, Karina S, Van Hautegem, Tom, Fendrych, Matyáš, Van Isterdael, Gert, Bjerkan, Katrine N, Miller, Jason R, Nowack, Moritz K, Grini, Paul E
Publicado 2022

Initial genome sequencing of the sugarcane CP 96-1252 complex hybrid

por Miller, Jason R., Dilley, Kari A., Harkins, Derek M., Torralba, Manolito G., Moncera, Kelvin J., Beeri, Karen, Goglin, Karrie, Stockwell, Timothy B., Sutton, Granger G., Shabman, Reed S.
Publicado 2017

Strategies for optimizing BioNano and Dovetail explored through a second reference quality assembly for the legume model, Medicago truncatula

por Moll, Karen M., Zhou, Peng, Ramaraj, Thiruvarangan, Fajardo, Diego, Devitt, Nicholas P., Sadowsky, Michael J., Stupar, Robert M., Tiffin, Peter, Miller, Jason R., Young, Nevin D., Silverstein, Kevin A. T., Mudge, Joann
Publicado 2017

Exploring structural variation and gene family architecture with De Novo assemblies of 15 Medicago genomes

por Zhou, Peng, Silverstein, Kevin A. T., Ramaraj, Thiruvarangan, Guhlin, Joseph, Denny, Roxanne, Liu, Junqi, Farmer, Andrew D., Steele, Kelly P., Stupar, Robert M., Miller, Jason R., Tiffin, Peter, Mudge, Joann, Young, Nevin D.
Publicado 2017

A vertebrate case study of the quality of assemblies derived from next-generation sequences

por Ye, Liang, Hillier, LaDeana W, Minx, Patrick, Thane, Nay, Locke, Devin P, Martin, John C, Chen, Lei, Mitreva, Makedonka, Miller, Jason R, Haub, Kevin V, Dooling, David J, Mardis, Elaine R, Wilson, Richard K, Weinstock, George M, Warren, Wesley C
Publicado 2011

Araport: the Arabidopsis Information Portal

por Krishnakumar, Vivek, Hanlon, Matthew R., Contrino, Sergio, Ferlanti, Erik S., Karamycheva, Svetlana, Kim, Maria, Rosen, Benjamin D., Cheng, Chia-Yi, Moreira, Walter, Mock, Stephen A., Stubbs, Joseph, Sullivan, Julie M., Krampis, Konstantinos, Miller, Jason R., Micklem, Gos, Vaughn, Matthew, Town, Christopher D.
Publicado 2014

An improved genome assembly uncovers prolific tandem repeats in Atlantic cod

por Tørresen, Ole K., Star, Bastiaan, Jentoft, Sissel, Reinar, William B., Grove, Harald, Miller, Jason R., Walenz, Brian P., Knight, James, Ekholm, Jenny M., Peluso, Paul, Edvardsen, Rolf B., Tooming-Klunderud, Ave, Skage, Morten, Lien, Sigbjørn, Jakobsen, Kjetill S., Nederbragt, Alexander J.
Publicado 2017

Hybrid assembly with long and short reads improves discovery of gene family expansions

por Miller, Jason R., Zhou, Peng, Mudge, Joann, Gurtowski, James, Lee, Hayan, Ramaraj, Thiruvarangan, Walenz, Brian P., Liu, Junqi, Stupar, Robert M., Denny, Roxanne, Song, Li, Singh, Namrata, Maron, Lyza G., McCouch, Susan R., McCombie, W. Richard, Schatz, Michael C., Tiffin, Peter, Young, Nevin D., Silverstein, Kevin A. T.
Publicado 2017

Analysis of the Aedes albopictus C6/36 genome provides insight into cell line utility for viral propagation

por Miller, Jason R, Koren, Sergey, Dilley, Kari A, Puri, Vinita, Brown, David M, Harkins, Derek M, Thibaud-Nissen, Françoise, Rosen, Benjamin, Chen, Xiao-Guang, Tu, Zhijian, Sharakhov, Igor V, Sharakhova, Maria V, Sebra, Robert, Stockwell, Timothy B, Bergman, Nicholas H, Sutton, Granger G, Phillippy, Adam M, Piermarini, Peter M, Shabman, Reed S
Publicado 2018

The Atlantic salmon genome provides insights into rediploidization

por Lien, Sigbjørn, Koop, Ben F., Sandve, Simen R., Miller, Jason R., Kent, Matthew P., Nome, Torfinn, Hvidsten, Torgeir R., Leong, Jong S., Minkley, David R., Zimin, Aleksey, Grammes, Fabian, Grove, Harald, Gjuvsland, Arne, Walenz, Brian, Hermansen, Russell A., von Schalburg, Kris, Rondeau, Eric B., Di Genova, Alex, Samy, Jeevan K. A., Olav Vik, Jon, Vigeland, Magnus D., Caler, Lis, Grimholt, Unni, Jentoft, Sissel, Inge Våge, Dag, de Jong, Pieter, Moen, Thomas, Baranski, Matthew, Palti, Yniv, Smith, Douglas R., Yorke, James A., Nederbragt, Alexander J., Tooming-Klunderud, Ave, Jakobsen, Kjetill S., Jiang, Xuanting, Fan, Dingding, Hu, Yan, Liberles, David A., Vidal, Rodrigo, Iturra, Patricia, Jones, Steven J. M., Jonassen, Inge, Maass, Alejandro, Omholt, Stig W., Davidson, William S.
Publicado 2016

Genomic insights into the Ixodes scapularis tick vector of Lyme disease

por Gulia-Nuss, Monika, Nuss, Andrew B., Meyer, Jason M., Sonenshine, Daniel E., Roe, R. Michael, Waterhouse, Robert M., Sattelle, David B., de la Fuente, José, Ribeiro, Jose M., Megy, Karine, Thimmapuram, Jyothi, Miller, Jason R., Walenz, Brian P., Koren, Sergey, Hostetler, Jessica B., Thiagarajan, Mathangi, Joardar, Vinita S., Hannick, Linda I., Bidwell, Shelby, Hammond, Martin P., Young, Sarah, Zeng, Qiandong, Abrudan, Jenica L., Almeida, Francisca C., Ayllón, Nieves, Bhide, Ketaki, Bissinger, Brooke W., Bonzon-Kulichenko, Elena, Buckingham, Steven D., Caffrey, Daniel R., Caimano, Melissa J., Croset, Vincent, Driscoll, Timothy, Gilbert, Don, Gillespie, Joseph J., Giraldo-Calderón, Gloria I., Grabowski, Jeffrey M., Jiang, David, Khalil, Sayed M. S., Kim, Donghun, Kocan, Katherine M., Koči, Juraj, Kuhn, Richard J., Kurtti, Timothy J., Lees, Kristin, Lang, Emma G., Kennedy, Ryan C., Kwon, Hyeogsun, Perera, Rushika, Qi, Yumin, Radolf, Justin D., Sakamoto, Joyce M., Sánchez-Gracia, Alejandro, Severo, Maiara S., Silverman, Neal, Šimo, Ladislav, Tojo, Marta, Tornador, Cristian, Van Zee, Janice P., Vázquez, Jesús, Vieira, Filipe G., Villar, Margarita, Wespiser, Adam R., Yang, Yunlong, Zhu, Jiwei, Arensburger, Peter, Pietrantonio, Patricia V., Barker, Stephen C., Shao, Renfu, Zdobnov, Evgeny M., Hauser, Frank, Grimmelikhuijzen, Cornelis J. P., Park, Yoonseong, Rozas, Julio, Benton, Richard, Pedra, Joao H. F., Nelson, David R., Unger, Maria F., Tubio, Jose M. C., Tu, Zhijian, Robertson, Hugh M., Shumway, Martin, Sutton, Granger, Wortman, Jennifer R., Lawson, Daniel, Wikel, Stephen K., Nene, Vishvanath M., Fraser, Claire M., Collins, Frank H., Birren, Bruce, Nelson, Karen E., Caler, Elisabet, Hill, Catherine A.
Publicado 2016

A framework for human microbiome research

por Methé, Barbara A., Nelson, Karen E., Pop, Mihai, Creasy, Heather H., Giglio, Michelle G., Huttenhower, Curtis, Gevers, Dirk, Petrosino, Joseph F., Abubucker, Sahar, Badger, Jonathan H., Chinwalla, Asif T., Earl, Ashlee M., FitzGerald, Michael G., Fulton, Robert S., Hallsworth-Pepin, Kymberlie, Lobos, Elizabeth A., Madupu, Ramana, Magrini, Vincent, Martin, John C., Mitreva, Makedonka, Muzny, Donna M., Sodergren, Erica J., Versalovic, James, Wollam, Aye M., Worley, Kim C., Wortman, Jennifer R., Young, Sarah K., Zeng, Qiandong, Aagaard, Kjersti M., Abolude, Olukemi O., Allen-Vercoe, Emma, Alm, Eric J., Alvarado, Lucia, Andersen, Gary L., Anderson, Scott, Appelbaum, Elizabeth, Arachchi, Harindra M., Armitage, Gary, Arze, Cesar A., Ayvaz, Tulin, Baker, Carl C., Begg, Lisa, Belachew, Tsegahiwot, Bhonagiri, Veena, Bihan, Monika, Blaser, Martin J., Bloom, Toby, Vivien Bonazzi, J., Brooks, Paul, Buck, Gregory A., Buhay, Christian J., Busam, Dana A., Campbell, Joseph L., Canon, Shane R., Cantarel, Brandi L., Chain, Patrick S., Chen, I-Min A., Chen, Lei, Chhibba, Shaila, Chu, Ken, Ciulla, Dawn M., Clemente, Jose C., Clifton, Sandra W., Conlan, Sean, Crabtree, Jonathan, Cutting, Mary A., Davidovics, Noam J., Davis, Catherine C., DeSantis, Todd Z., Deal, Carolyn, Delehaunty, Kimberley D., Dewhirst, Floyd E., Deych, Elena, Ding, Yan, Dooling, David J., Dugan, Shannon P., Dunne, Wm. Michael, Durkin, A. Scott, Edgar, Robert C., Erlich, Rachel L., Farmer, Candace N., Farrell, Ruth M., Faust, Karoline, Feldgarden, Michael, Felix, Victor M., Fisher, Sheila, Fodor, Anthony A., Forney, Larry, Foster, Leslie, Di Francesco, Valentina, Friedman, Jonathan, Friedrich, Dennis C., Fronick, Catrina C., Fulton, Lucinda L., Gao, Hongyu, Garcia, Nathalia, Giannoukos, Georgia, Giblin, Christina, Giovanni, Maria Y., Goldberg, Jonathan M., Goll, Johannes, Gonzalez, Antonio, Griggs, Allison, Gujja, Sharvari, Haas, Brian J., Hamilton, Holli A., Harris, Emily L., Hepburn, Theresa A., Herter, Brandi, Hoffmann, Diane E., Holder, Michael E., Howarth, Clinton, Huang, Katherine H., Huse, Susan M., Izard, Jacques, Jansson, Janet K., Jiang, Huaiyang, Jordan, Catherine, Joshi, Vandita, Katancik, James A., Keitel, Wendy A., Kelley, Scott T., Kells, Cristyn, Kinder-Haake, Susan, King, Nicholas B., Knight, Rob, Knights, Dan, Kong, Heidi H., Koren, Omry, Koren, Sergey, Kota, Karthik C., Kovar, Christie L., Kyrpides, Nikos C., La Rosa, Patricio S., Lee, Sandra L., Lemon, Katherine P., Lennon, Niall, Lewis, Cecil M., Lewis, Lora, Ley, Ruth E., Li, Kelvin, Liolios, Konstantinos, Liu, Bo, Liu, Yue, Lo, Chien-Chi, Lozupone, Catherine A., Lunsford, R. Dwayne, Madden, Tessa, Mahurkar, Anup A., Mannon, Peter J., Mardis, Elaine R., Markowitz, Victor M., Mavrommatis, Konstantinos, McCorrison, Jamison M., McDonald, Daniel, McEwen, Jean, McGuire, Amy L., McInnes, Pamela, Mehta, Teena, Mihindukulasuriya, Kathie A., Miller, Jason R., Minx, Patrick J., Newsham, Irene, Nusbaum, Chad, O’Laughlin, Michelle, Orvis, Joshua, Pagani, Ioanna, Palaniappan, Krishna, Patel, Shital M., Pearson, Matthew, Peterson, Jane, Podar, Mircea, Pohl, Craig, Pollard, Katherine S., Priest, Margaret E., Proctor, Lita M., Qin, Xiang, Raes, Jeroen, Ravel, Jacques, Reid, Jeffrey G., Rho, Mina, Rhodes, Rosamond, Riehle, Kevin P., Rivera, Maria C., Rodriguez-Mueller, Beltran, Rogers, Yu-Hui, Ross, Matthew C., Russ, Carsten, Sanka, Ravi K., Pamela Sankar, J., Sathirapongsasuti, Fah, Schloss, Jeffery A., Schloss, Patrick D., Schmidt, Thomas M., Scholz, Matthew, Schriml, Lynn, Schubert, Alyxandria M., Segata, Nicola, Segre, Julia A., Shannon, William D., Sharp, Richard R., Sharpton, Thomas J., Shenoy, Narmada, Sheth, Nihar U., Simone, Gina A., Singh, Indresh, Smillie, Chris S., Sobel, Jack D., Sommer, Daniel D., Spicer, Paul, Sutton, Granger G., Sykes, Sean M., Tabbaa, Diana G., Thiagarajan, Mathangi, Tomlinson, Chad M., Torralba, Manolito, Treangen, Todd J., Truty, Rebecca M., Vishnivetskaya, Tatiana A., Walker, Jason, Wang, Lu, Wang, Zhengyuan, Ward, Doyle V., Warren, Wesley, Watson, Mark A., Wellington, Christopher, Wetterstrand, Kris A., White, James R., Wilczek-Boney, Katarzyna, Wu, Yuan Qing, Wylie, Kristine M., Wylie, Todd, Yandava, Chandri, Ye, Liang, Ye, Yuzhen, Yooseph, Shibu, Youmans, Bonnie P., Zhang, Lan, Zhou, Yanjiao, Zhu, Yiming, Zoloth, Laurie, Zucker, Jeremy D., Birren, Bruce W., Gibbs, Richard A., Highlander, Sarah K., Weinstock, George M., Wilson, Richard K., White, Owen
Publicado 2012