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Solanum pan-genetics reveals paralogues as contingencies in crop engineering Benoit, Matthias; Jenike, Katharine M.; Satterlee, James W.; Ramakrishnan, Srividya; Gentile, Iacopo; Hendelman, Anat; Passalacqua, Michael J.; Suresh, Hamsini; Shohat, Hagai; Robitaille, Gina M.; Fitzgerald, Blaine; Alonge, Michael; Wang, Xingang; Santos, Ryan; He, Jia; Ou, Shujun; Golan, Hezi; Green, Yumi; Swartwood, Kerry; Karavolias, Nicholas G.; Sierra, Gina P.; Orejuela, Andres; Roda, Federico; Goodwin, Sara; Mccombie, W. Richard; Kizito, Elizabeth B.; Gagnon, Edeline; Knapp, Sandra; Saerkinen, Tiina E.; Frary, Amy; Gillis, Jesse; Van Eck, Joyce; Schatz, Michael C.; Lippman, Zachary B. Share Save
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Gapless assembly of complete human and plant chromosomes using only nanopore sequencing Koren, Sergey; Bao, Zhigui; Guarracino, Andrea; Ou, Shujun; Goodwin, Sara; Jenike, Katharine M.; Lucas, Julian; Mcnulty, Brandy; Park, Jimin; Rautiainen, Mikko; Rhie, Arang; Roelofs, Dick; Schneiders, Harrie; Vrijenhoek, Ilse; Nijbroek, Koen; Nordesjo, Olle; Nurk, Sergey; Vella, Mike; Lawrence, Katherine R.; Ware, Doreen; Schatz, Michael C.; Garrison, Erik; Huang, Sanwen; Mccombie, William Richard; Miga, Karen H.; Wittenberg, Alexander H. J.; Phillippy, Adam M. Share Save
High-coverage nanopore sequencing of samples from the 1000 Genomes Project to build a comprehensive catalog of human genetic variation Gustafson, Jonas A.; Gibson, Sophia B.; Damaraju, Nikhita; Zalusky, Miranda P. G.; Hoekzema, Kendra; Twesigomwe, David; Yang, Lei; Snead, Anthony A.; Richmond, Phillip A.; De Coster, Wouter; Olson, Nathan D.; Guarracino, Andrea; Li, Qiuhui; Miller, Angela L.; Goffena, Joy; Anderson, Zachary B.; Storz, Sophie H. R.; Ward, Sydney A.; Sinha, Maisha; Gonzaga-Jauregui, Claudia; Clarke, Wayne E.; Basile, Anna O.; Corvelo, Andre; Reeves, Catherine; Helland, Adrienne; Musunuri, Rajeeva Lochan; Revsine, Mahler; Patterson, Karynne E.; Paschal, Cate R.; Zakarian, Christina; Goodwin, Sara; Jensen, Tanner D.; Robb, Esther; McCombie, William Richard; Sedlazeck, Fritz J.; Zook, Justin M.; Montgomery, Stephen B.; Garrison, Erik; Kolmogorov, Mikhail; Schatz, Michael C.; McLaughlin Jr, Richard N.; Dashnow, Harriet; Zody, Michael C.; Loose, Matt; Jain, Miten; Eichler, Evan E.; Miller, Danny E. Share Save
Monozygotic twins discordant for schizophrenia differ in maturation and synaptic transmission Stern, Shani; Zhang, Lei; Wang, Meiyan; Wright, Rebecca; Rosh, Idan; Hussein, Yara; Stern, Tchelet; Choudhary, Ashwani; Tripathi, Utkarsh; Reed, Patrick; Sadis, Hagit; Nayak, Ritu; Shemen, Aviram; Agarwal, Karishma; Cordeiro, Diogo; Peles, David; Hang, Yuqing; Mendes, Ana P. D.; Baul, Tithi D.; Roth, Julien G.; Coorapati, Shashank; Boks, Marco P.; Mccombie, W. Richard; Hulshoff Pol, Hilleke; Brennand, Kristen J.; Rethelyi, Janos M.; Kahn, Rene S.; Marchetto, Maria C.; Gage, Fred H. Share Save
CAGI, the Critical Assessment of Genome Interpretation, establishes progress and prospects for computational genetic variant interpretation methods Jain, Shantanu; Bakolitsa, Constantina; Brenner, Steven E.; Radivojac, Predrag; Moult, John; Repo, Susanna; Hoskins, Roger A.; Andreoletti, Gaia; Barsky, Daniel; Chellapan, Ajithavalli; Chu, Hoyin; Dabbiru, Navya; Kollipara, Naveen K.; Ly, Melissa; Neumann, Andrew J.; Pal, Lipika R.; Odell, Eric; Pandey, Gaurav; Peters-Petrulewicz, Robin C.; Srinivasan, Rajgopal; Yee, Stephen F.; Yeleswarapu, Sri Jyothsna; Zuhl, Maya; Adebali, Ogun; Patra, Ayoti; Beer, Michael A.; Hosur, Raghavendra; Peng, Jian; Bernard, Brady M.; Berry, Michael; Dong, Shengcheng; Boyle, Alan P.; Adhikari, Aashish; Chen, Jingqi; Hu, Zhiqiang; Wang, Robert; Wang, Yaqiong; Miller, Maximilian; Wang, Yanran; Bromberg, Yana; Turina, Paola; Capriotti, Emidio; Han, James J.; Ozturk, Kivilcim; Carter, Hannah; Babbi, Giulia; Bovo, Samuele; Di Lena, Pietro; Martelli, Pier Luigi; Savojardo, Castrense; Casadio, Rita; Cline, Melissa S.; De Baets, Greet; Bonache, Sandra; Diez, Orland; Gutierrez-Enriquez, Sara; Fernandez, Alejandro; Montalban, Gemma; Ootes, Lars; Ozkan, Selen; Padilla, Natalia; Riera, Casandra; De la Cruz, Xavier; Diekhans, Mark; Huwe, Peter J.; Wei, Qiong; Xu, Qifang; Dunbrack, Roland L.; Gotea, Valer; Elnitski, Laura; Margolin, Gennady; Fariselli, Piero; Kulakovskiy, Ivan V.; Makeev, Vsevolod J.; Penzar, Dmitry D.; Vorontsov, Ilya E.; Favorov, Alexander V.; Forman, Julia R.; Hasenahuer, Marcia; Fornasari, Maria S.; Parisi, Gustavo; Avsec, Ziga; Celik, Muhammed H.; Thi Yen Duong Nguyen; Gagneur, Julien; Shi, Fang-Yuan; Edwards, Matthew D.; Guo, Yuchun; Tian, Kevin; Zeng, Haoyang; Gifford, David K.; Goke, Jonathan; Zaucha, Jan; Gough, Julian; Ritchie, Graham R. S.; Frankish, Adam; Mudge, Jonathan M.; Harrow, Jennifer; Young, Erin L.; Yu, Yao; Huff, Chad D.; Murakami, Katsuhiko; Nagai, Yoko; Imanishi, Tadashi; Mungall, Christopher J.; Jacobsen, Julius O. B.; Kim, Dongsup; Jeong, Chan-Seok; Jones, David T.; Li, Mulin Jun; Guthrie, Violeta Beleva; Bhattacharya, Rohit; Chen, Yun-Ching; Douville, Christopher; Fan, Jean; Kim, Dewey; Masica, David; Niknafs, Noushin; Sengupta, Sohini; Tokheim, Collin; Turner, Tychele N.; Yeo, Hui Ting Grace; Karchin, Rachel; Shin, Sunyoung; Welch, Rene; Keles, Sunduz; Li, Yue; Kellis, Manolis; Corbi-Verge, Carles; Strokach, Alexey V.; Kim, Philip M.; Klein, Teri E.; Mohan, Rahul; Sinnott-Armstrong, Nicholas A.; Wainberg, Michael; Kundaje, Anshul; Gonzaludo, Nina; Mak, Angel C. Y.; Chhibber, Aparna; Lam, Hugo Y. K.; Dahary, Dvir; Fishilevich, Simon; Lancet, Doron; Lee, Insuk; Bachman, Benjamin; Katsonis, Panagiotis; Lua, Rhonald C.; Wilson, Stephen J.; Lichtarge, Olivier; Bhat, Rajendra R.; Sundaram, Laksshman; Viswanath, Vivek; Bellazzi, Riccardo; Nicora, Giovanna; Rizzo, Ettore; Limongelli, Ivan; Mezlini, Aziz M.; Chang, Ray; Kim, Serra; Lai, Carmen; O'Connor, Robert; Topper, Scott; van den Akker, Jeroen; Zhou, Alicia Y.; Zimmer, Anjali D.; Mishne, Gilad; Bergquist, Timothy R.; Breese, Marcus R.; Guerrero, Rafael F.; Jiang, Yuxiang; Kiga, Nikki; Li, Biao; Mort, Matthew; Pagel, Kymberleigh A.; Pejaver, Vikas; Stamboulian, Moses H.; Thusberg, Janita; Mooney, Sean D.; Teerakulkittipong, Nuttinee; Cao, Chen; Kundu, Kunal; Yin, Yizhou; Yu, Chen-Hsin; Kleyman, Michael; Lin, Chiao-Feng; Stackpole, Mary; Mount, Stephen M.; Eraslan, Gokcen; Mueller, Nikola S.; Naito, Tatsuhiko; Rao, Aliz R.; Azaria, Johnathan R.; Brodie, Aharon; Ofran, Yanay; Garg, Aditi; Pal, Debnath; Hawkins-Hooker, Alex; Kenlay, Henry; Reid, John; Mucaki, Eliseos J.; Rogan, Peter K.; Schwarz, Jana M.; Searls, David B.; Lee, Gyu Rie; Seok, Chaok; Kramer, Andreas; Shah, Sohela; Huang, ChengLai V.; Kirsch, Jack F.; Shatsky, Maxim; Cao, Yue; Chen, Haoran; Karimi, Mostafa; Moronfoye, Oluwaseyi; Sun, Yuanfei; Shen, Yang; Shigeta, Ron; Ford, Colby T.; Nodzak, Conor; Uppal, Aneeta; Shi, Xinghua; Joseph, Thomas; Kotte, Sujatha; Rana, Sadhna; Rao, Aditya; Saipradeep, V. G.; Sivadasan, Naveen; Sunderam, Uma; Stanke, Mario; Su, Andrew; Adzhubey, Ivan; Jordan, Daniel M.; Sunyaev, Shamil; Rousseau, Frederic; Schymkowitz, Joost; Van Durme, Joost; Tavtigian, Sean V.; Carraro, Marco; Giollo, Manuel; Tosatto, Silvio C. E.; Adato, Orit; Carmel, Liran; Cohen, Noa E.; Fenesh, Izila; Holtzer, Iamar; Juven-Gershon, Tamar; Unger, Ron; Niroula, Abhishek; Olatubosun, Ayodeji; Valiaho, Jouni; Yang, Yang; Vihinen, Mauno; Wahl, Mary E.; Chang, Billy; Chong, Ka Chun; Hu, Inchi; Sun, Rui; Wu, William Ka Kei; Xia, Xiaoxuan; Zee, Benny C.; Wang, Maggie H.; Wang, Meng; Wu, Chunlei; Lu, Yutong; Chen, Ken; Yang, Yuedong; Yates, Christopher M.; Kreimer, Anat; Yan, Zhongxia; Yosef, Nir; Zhao, Huying; Wei, Zhipeng; Yao, Zhaomin; Zhou, Fengfeng; Folkman, Lukas; Zhou, Yaoqi; Daneshjou, Roxana; Altman, Russ B.; Inoue, Fumitaka; Ahituv, Nadav; Arkin, Adam P.; Lovisa, Federica; Bonvini, Paolo; Bowdin, Sarah; Gianni, Stefano; Mantuano, Elide; Minicozzi, Velia; Novak, Leonore; Pasquo, Alessandra; Pastore, Annalisa; Petrosino, Maria; Puglisi, Rita; Toto, Angelo; Veneziano, Liana; Chiaraluce, Roberta; Ball, Mad P.; Bobe, Jason R.; Church, George M.; Consalvi, Valerio; Mort, Matthew; Cooper, David N.; Buckley, Bethany A.; Sheridan, Molly B.; Cutting, Garry R.; Scaini, Maria Chiara; Cygan, Kamil J.; Fredericks, Alger M.; Glidden, David T.; Neil, Christopher; Rhine, Christy L.; Fairbrother, William G.; Alontaga, Aileen Y.; Fenton, Aron W.; Matreyek, Kenneth A.; Starita, Lea M.; Fowler, Douglas M.; Loescher, Britt-Sabina; Franke, Andre; Adamson, Scott I.; Graveley, Brenton R.; Gray, Joe W.; Malloy, Mary J.; Kane, John P.; Kousi, Maria; Katsanis, Nicholas; Schubach, Max; Kircher, Martin; Tang, Paul L. F.; Kwok, Pui-Yan; Lathrop, Richard H.; Clark, Wyatt T.; Yu, Guoying K.; LeBowitz, Jonathan H.; Benedicenti, Francesco; Bettella, Elisa; Bigoni, Stefania; Cesca, Federica; Mammi, Isabella; Marino-Bus-Ije, Cristina; Milani, Donatella; Peron, Angela; Polli, Roberta; Sartori, Stefano; Stanzial, Franco; Ioldo, Irene; Turolla, Licia; Aspromonte, Maria C.; Bellini, Mariagrazia; Leonardi, Emanuela; Liu, Xiaoming; Marshall, Christian; McCombie, W. Richard; Elefanti, Lisa; Menin, Chiara; Meyn, M. Stephen; Murgia, Alessandra; Nadeau, Kari C. Y.; Neuhausen, Susan L.; Nussbaum, Robert L.; Pirooznia, Mehdi; Potash, James B.; Dimster-Denk, Dago F.; Rine, Jasper D.; Sanford, Jeremy R.; Snyder, Michael; Tavtigian, Sean V.; Cole, Alina G.; Sun, Song; Verby, Marta W.; Weile, Jochen; Roth, Frederick P.; Tewhey, Ryan; Sabeti, Pardis C.; Campagna, Joan; Refaat, Marwan M.; Wojciak, Julianne; Grubb, Soren; Schmitt, Nicole; Shendure, Jay; Spurdle, Amanda B.; Stavropoulos, Dimitri J.; Walton, Nephi A.; Zandi, Peter P.; Ziv, Elad; Burke, Wylie; Chen, Flavia; Carr, Lawrence R.; Martinez, Selena; Paik, Jodi; Harris-Wai, Julie; Yarborough, Mark; Fullerton, Stephanie M.; Koenig, Barbara A.; McInnes, Gregory; Shigaki, Dustin; Chandonia, John-Marc; Furutsuki, Mabel; Kasak, Laura; Yu, Changhua; Chen, Rui; Cline, Melissa S.; Pandey, Gaurav; Friedberg, Iddo; Getz, Gad A.; Cong, Qian; Kinch, Lisa N.; Zhang, Jing; Grishin, Nick V.; Voskanian, Alin; Kann, Maricel G.; Clark, Wyatt T.; Tran, Elizabeth; Ioannidis, Nilah M.; Hunter, Jesse M.; Udani, Rupa; Cai, Binghuang; Morgan, Alexander A.; Sokolov, Artem; Stuart, Joshua M.; Tavtigian, Sean V.; Minervini, Giovanni; Monzon, Alexander M.; Batzoglou, Serafim; Butte, Atul J.; Church, George M.; Greenblatt, Marc S.; Hart, Reece K.; Hernandez, Ryan; Hubbard, Tim J. P.; Kahn, Scott; O'Donnell-Luria, Anne; Ng, Pauline C.; Shon, John; Tavtigian, Sean V.; Veltman, Joris; Zook, Justin M. Share Save
Long-Read Sequencing Reveals Rapid Evolution of Immunity- and Cancer-Related Genes in Bats Scheben, Armin; Ramos, Olivia Mendivil; Kramer, Melissa; Goodwin, Sara; Oppenheim, Sara; Becker, Daniel J.; Schatz, Michael C.; Simmons, Nancy B.; Siepel, Adam; McCombie, W. Richard Share Save
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Familial long-read sequencing increases yield of de novo mutations Noyes, Michelle D.; Harvey, William T.; Porubsky, David; Sulovari, Arvis; Li, Ruiyang; Rose, Nicholas R.; Audano, Peter A.; Munson, Katherine M.; Lewis, Alexandra P.; Hoekzema, Kendra; Mantere, Tuomo; Graves-Lindsay, Tina A.; Sanders, Ashley D.; Goodwin, Sara; Kramer, Melissa; Mokrab, Younes; Zody, Michael C.; Hoischen, Alexander; Korbel, Jan O.; McCombie, W. Richard; Eichler, Evan E. Share Save
Transcriptional Silencing of ALDH2 Confers a Dependency on Fanconi Anemia Proteins in Acute Myeloid Leukemia Yang, Zhaolin; Wu, Xiaoli S.; Wei, Yiliang; Polyanskaya, Sofya A.; Iyer, Shruti, V; Jung, Moonjung; Lach, Francis P.; Adelman, Emmalee R.; Klingbeil, Olaf; Milazzo, Joseph P.; Kramer, Melissa; Demerdash, Osama E.; Chang, Kenneth; Goodwin, Sara; Hodges, Emily; McCombie, W. Richard; Figueroa, Maria E.; Smogorzewska, Agata; Vakoc, Christopher R. Share Save
Impact of preoperative antibiotics and other variables on integrated microbiome-host transcriptomic data generated from colorectal cancer resections Malik, Sarah A.; Zhu, Chencan; Li, Jinyu; LaComb, Joseph F.; Denoya, Paula, I; Kravets, Igor; Miller, Joshua D.; Yang, Jie; Kramer, Melissa; McCombie, W. Richard; Robertson, Charles E.; Frank, Daniel N.; Li, Ellen Share Save
Investigating rare pathogenic/likely pathogenic exonic variation in bipolar disorder (Jan, 10.1038/s41380-020-01006-9, 2021) Jia, Xiaoming; Goes, Fernando S.; Locke, Adam E.; Palmer, Duncan; Wang, Weiqing; Cohen-Woods, Sarah; Genovese, Giulio; Jackson, Anne U.; Jiang, Chen; Kvale, Mark; Mullins, Niamh; Nguyen, Hoang; Pirooznia, Mehdi; Rivera, Margarita; Ruderfer, Douglas M.; Shen, Ling; Thai, Khanh; Zawistowski, Matthew; Zhuang, Yongwen; Abecasis, Goncalo; Akil, Huda; Bergen, Sarah; Burmeister, Margit; Chapman, Sinead; DelaBastide, Melissa; Jureus, Anders; Kang, Hyun Min; Kwok, Pui-Yan; Li, Jun Z.; Levy, Shawn E.; Monson, Eric T.; Moran, Jennifer; Sobell, Janet; Watson, Stanley; Willour, Virginia; Zollner, Sebastian; Adolfsson, Rolf; Blackwood, Douglas; Boehnke, Michael; Breen, Gerome; Corvin, Aiden; Craddock, Nick; DiFlorio, Arianna; Hultman, Christina M.; Landen, Mikael; Lewis, Cathryn; McCarroll, Steven A.; Richard McCombie, W.; McGuffin, Peter; McIntosh, Andrew; McQuillin, Andrew; Morris, Derek; Myers, Richard M.; O'Donovan, Michael; Ophoff, Roel; Boks, Marco; Kahn, Rene; Ouwehand, Willem; Owen, Michael; Pato, Carlos; Pato, Michele; Posthuma, Danielle; Potash, James B.; Reif, Andreas; Sklar, Pamela; Smoller, Jordan; Sullivan, Patrick F.; Vincent, John; Walters, James; Neale, Benjamin; Purcell, Shaun; Risch, Neil; Schaefer, Catherine; Stahl, Eli A.; Zandi, Peter P.; Scott, Laura J. Share Save
The human origin recognition complex is essential for pre-RC assembly, mitosis, and maintenance of nuclear structure Chou, Hsiang-Chen; Bhalla, Kuhulika; El Demerdesh, Osama; Klingbeil, Olaf; Hanington, Kaarina; Aganezov, Sergey; Andrews, Peter; Alsudani, Habeeb; Chang, Kenneth; Vakoc, Christopher R.; Schatz, Michael C.; McCombie, W. Richard; Stillman, Bruce Share Save
Investigating rare pathogenic/likely pathogenic exonic variation in bipolar disorder Jia, Xiaoming; Goes, Fernando S.; Locke, Adam E.; Palmer, Duncan; Wang, Weiqing; Cohen-Woods, Sarah; Genovese, Giulio; Jackson, Anne U.; Jiang, Chen; Kvale, Mark; Mullins, Niamh; Nguyen, Hoang; Pirooznia, Mehdi; Rivera, Margarita; Ruderfer, Douglas M.; Shen, Ling; Thai, Khanh; Zawistowski, Matthew; Zhuang, Yongwen; Abecasis, Goncalo; Akil, Huda; Bergen, Sarah; Burmeister, Margit; Champion, Sinead; DelaBastide, Melissa; Jureus, Anders; Kang, Hyun Min; Kwok, Pui-Yan; Li, Jun Z.; Levy, Shawn E.; Monson, Eric T.; Moran, Jennifer; Sobell, Janet; Watson, Stanley; Willour, Virginia; Zollner, Sebastian; Adolfsson, Rolf; Blackwood, Douglas; Boehnke, Michael; Breen, Gerome; Corvin, Aiden; Craddock, Nick; DiFlorio, Arianna; Hultman, Christina M.; Landen, Mikael; Lewis, Cathryn; McCarroll, Steven A.; Richard McCombie, W.; McGuffin, Peter; McIntosh, Andrew; McQuillin, Andrew; Morris, Derek; Myers, Richard M.; O'Donovan, Michael; Ophoff, Roel; Boks, Marco; Kahn, Rene; Ouwehand, Willem; Owen, Michael; Pato, Carlos; Pato, Michele; Posthuma, Danielle; Potash, James B.; Reif, Andreas; Sklar, Pamela; Smoller, Jordan; Sullivan, Patrick F.; Vincent, John; Walters, James; Neale, Benjamin; Purcell, Shaun; Risch, Neil; Schaefer, Catherine; Stahl, Eli A.; Zandi, Peter P.; Scott, Laura J. Share Save
Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing Aganezov, Sergey; Goodwin, Sara; Sherman, Rachel M.; Sedlazeck, Fritz J.; Arun, Gayatri; Bhatia, Sonam; Lee, Isac; Kirsche, Melanie; Wappel, Robert; Kramer, Melissa; Kostroff, Karen; Spector, David L.; Timp, Winston; McCombie, W. Richard; Schatz, Michael C. Share Save
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Management, Analyses, and Distribution of the MaizeCODE Data on the Cloud Wang, Liya; Lu, Zhenyuan; delaBastide, Melissa; Van Buren, Peter; Wang, Xiaofei; Ghiban, Cornel; Regulski, Michael; Drenkow, Jorg; Xu, Xiaosa; Ortiz-Ramirez, Carlos; Marco, Cristina F.; Goodwin, Sara; Dobin, Alexander; Birnbaum, Kenneth D.; Jackson, David P.; Martienssen, Robert A.; McCombie, William R.; Micklos, David A.; Schatz, Michael C.; Ware, Doreen H.; Gingeras, Thomas R. Share Save
SDG8-Mediated Histone Methylation and RNA Processing Function in the Response to Nitrate Signaling Li, Ying; Brooks, Matthew; Yeoh-Wang, Jenny; McCoy, Rachel M.; Rock, Tara M.; Pasquino, Angelo; Moon, Chang In; Patrick, Ryan M.; Tanurdzic, Milos; Ruffel, Sandrine; Widhalm, Joshua R.; McCombie, W. Richard; Coruzzi, Gloria M. Share Save
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