RepeatModeler2 for automated genomic discovery of transposable element families
Flynn, Jullien M., Hubley, Robert, Goubert, Clément, Rosenb, Jeb, Clark, Andrew G., Feschotte, Cédric, Smit, Arian F.
Published in Proceedings of the National Academy of Sciences - PNAS (28.04.2020)
Published in Proceedings of the National Academy of Sciences - PNAS (28.04.2020)
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Journal Article
The Dfam community resource of transposable element families, sequence models, and genome annotations
Storer, Jessica, Hubley, Robert, Rosen, Jeb, Wheeler, Travis J, Smit, Arian F
Published in Mobile DNA (12.01.2021)
Published in Mobile DNA (12.01.2021)
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Journal Article
The Dfam database of repetitive DNA families
Hubley, Robert, Finn, Robert D, Clements, Jody, Eddy, Sean R, Jones, Thomas A, Bao, Weidong, Smit, Arian F A, Wheeler, Travis J
Published in Nucleic acids research (04.01.2016)
Published in Nucleic acids research (04.01.2016)
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Journal Article
Dfam: a database of repetitive DNA based on profile hidden Markov models
Wheeler, Travis J, Clements, Jody, Eddy, Sean R, Hubley, Robert, Jones, Thomas A, Jurka, Jerzy, Smit, Arian F A, Finn, Robert D
Published in Nucleic acids research (01.01.2013)
Published in Nucleic acids research (01.01.2013)
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Journal Article
Analysis of Genetic Inheritance in a Family Quartet by Whole-Genome Sequencing
Roach, Jared C, Glusman, Gustavo, Smit, Arian F.A, Huff, Chad D, Hubley, Robert, Shannon, Paul T, Rowen, Lee, Pant, Krishna P, Goodman, Nathan, Bamshad, Michael, Shendure, Jay, Drmanac, Radoje, Jorde, Lynn B, Hood, Leroy, Galas, David J
Published in Science (American Association for the Advancement of Science) (30.04.2010)
Published in Science (American Association for the Advancement of Science) (30.04.2010)
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Journal Article
The transposable element-rich genome of the cereal pest Sitophilus oryzae
Parisot, Nicolas, Vargas-Chávez, Carlos, Goubert, Clément, Baa-Puyoulet, Patrice, Balmand, Séverine, Beranger, Louis, Blanc, Caroline, Bonnamour, Aymeric, Boulesteix, Matthieu, Burlet, Nelly, Calevro, Federica, Callaerts, Patrick, Chancy, Théo, Charles, Hubert, Colella, Stefano, Da Silva Barbosa, André, Dell'Aglio, Elisa, Di Genova, Alex, Febvay, Gérard, Gabaldón, Toni, Galvão Ferrarini, Mariana, Gerber, Alexandra, Gillet, Benjamin, Hubley, Robert, Hughes, Sandrine, Jacquin-Joly, Emmanuelle, Maire, Justin, Marcet-Houben, Marina, Masson, Florent, Meslin, Camille, Montagné, Nicolas, Moya, Andrés, Ribeiro de Vasconcelos, Ana Tereza, Richard, Gautier, Rosen, Jeb, Sagot, Marie-France, Smit, Arian F A, Storer, Jessica M, Vincent-Monegat, Carole, Vallier, Agnès, Vigneron, Aurélien, Zaidman-Rémy, Anna, Zamoum, Waël, Vieira, Cristina, Rebollo, Rita, Latorre, Amparo, Heddi, Abdelaziz
Published in BMC biology (09.11.2021)
Published in BMC biology (09.11.2021)
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Journal Article
A unified test of linkage analysis and rare-variant association for analysis of pedigree sequence data
Hu, Hao, Roach, Jared C, Coon, Hilary, Guthery, Stephen L, Voelkerding, Karl V, Margraf, Rebecca L, Durtschi, Jacob D, Tavtigian, Sean V, Shankaracharya, Wu, Wilfred, Scheet, Paul, Wang, Shuoguo, Xing, Jinchuan, Glusman, Gustavo, Hubley, Robert, Li, Hong, Garg, Vidu, Moore, Barry, Hood, Leroy, Galas, David J, Srivastava, Deepak, Reese, Martin G, Jorde, Lynn B, Yandell, Mark, Huff, Chad D
Published in Nature biotechnology (01.07.2014)
Published in Nature biotechnology (01.07.2014)
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Journal Article
TE Hub: A community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotation
Elliott, Tyler A, Heitkam, Tony, Hubley, Robert, Quesneville, Hadi, Suh, Alexander, Wheeler, Travis J
Published in Mobile DNA (21.06.2021)
Published in Mobile DNA (21.06.2021)
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Journal Article
A common open representation of mass spectrometry data and its application to proteomics research
Aebersold, Ruedi, Pedrioli, Patrick G A, Eng, Jimmy K, Hubley, Robert, Vogelzang, Mathijs, Deutsch, Eric W, Raught, Brian, Pratt, Brian, Nilsson, Erik, Angeletti, Ruth H, Apweiler, Rolf, Cheung, Kei, Costello, Catherine E, Hermjakob, Henning, Huang, Sequin, Julian, Randall K, Kapp, Eugene, McComb, Mark E, Oliver, Stephen G, Omenn, Gilbert, Paton, Norman W, Simpson, Richard, Smith, Richard, Taylor, Chris F, Zhu, Weimin
Published in Nature biotechnology (01.11.2004)
Published in Nature biotechnology (01.11.2004)
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Journal Article
Relationship estimation from whole-genome sequence data
Li, Hong, Glusman, Gustavo, Hu, Hao, Shankaracharya, Caballero, Juan, Hubley, Robert, Witherspoon, David, Guthery, Stephen L, Mauldin, Denise E, Jorde, Lynn B, Hood, Leroy, Roach, Jared C, Huff, Chad D
Published in PLoS genetics (01.01.2014)
Published in PLoS genetics (01.01.2014)
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Journal Article
Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs
Green, Richard E., Braun, Edward L., Armstrong, Joel, Earl, Dent, Nguyen, Ngan, Hickey, Glenn, Vandewege, Michael W., St. John, John A., Capella-Gutiérrez, Salvador, Castoe, Todd A., Kern, Colin, Fujita, Matthew K., Opazo, Juan C., Jurka, Jerzy, Kojima, Kenji K., Caballero, Juan, Hubley, Robert M., Smit, Arian F., Platt, Roy N., Lavoie, Christine A., Ramakodi, Meganathan P., Finger, John W., Suh, Alexander, Isberg, Sally R., Miles, Lee, Chong, Amanda Y., Jaratlerdsiri, Weerachai, Gongora, Jaime, Moran, Christopher, Iriarte, Andrés, McCormack, John, Burgess, Shane C., Edwards, Scott V., Lyons, Eric, Williams, Christina, Breen, Matthew, Howard, Jason T., Gresham, Cathy R., Peterson, Daniel G., Schmitz, Jürgen, Pollock, David D., Haussler, David, Triplett, Eric W., Zhang, Guojie, Irie, Naoki, Jarvis, Erich D., Brochu, Christopher A., Schmidt, Carl J., McCarthy, Fiona M., Faircloth, Brant C., Hoffmann, Federico G., Glenn, Travis C., Gabaldón, Toni, Paten, Benedict, Ray, David A.
Published in Science (American Association for the Advancement of Science) (12.12.2014)
Published in Science (American Association for the Advancement of Science) (12.12.2014)
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Journal Article
Discovery of a new repeat family in the Callithrix jacchus genome
Konkel, Miriam K, Ullmer, Brygg, Arceneaux, Erika L, Sanampudi, Sreeja, Brantley, Sarah A, Hubley, Robert, Smit, Arian F A, Batzer, Mark A
Published in Genome research (01.05.2016)
Published in Genome research (01.05.2016)
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Journal Article
DupMasker: a tool for annotating primate segmental duplications
Jiang, Zhaoshi, Hubley, Robert, Smit, Arian, Eichler, Evan E
Published in Genome Research (01.08.2008)
Published in Genome Research (01.08.2008)
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Journal Article
Mobile DNA in Old World Monkeys: A Glimpse Through the Rhesus Macaque Genome
Han, Kyudong, Konkel, Miriam K, Xing, Jinchuan, Wang, Hui, Lee, Jungnam, Meyer, Thomas J, Huang, Charles T, Sandifer, Erin, Hebert, Kristi, Barnes, Erin W, Hubley, Robert, Miller, Webb, Smit, Arian F.A, Ullmer, Brygg, Batzer, Mark A
Published in Science (American Association for the Advancement of Science) (13.04.2007)
Published in Science (American Association for the Advancement of Science) (13.04.2007)
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Journal Article
PiggyBac-ing on a primate genome: novel elements, recent activity and horizontal transfer
Pagan, Heidi J T, Smith, Jeremy D, Hubley, Robert M, Ray, David A
Published in Genome biology and evolution (01.01.2010)
Published in Genome biology and evolution (01.01.2010)
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Journal Article
Orangutan Alu quiescence reveals possible source element: support for ancient backseat drivers
Walker, Jerilyn A, Konkel, Miriam K, Ullmer, Brygg, Monceaux, Christopher P, Ryder, Oliver A, Hubley, Robert, Smit, Arian Fa, Batzer, Mark A
Published in Mobile DNA (30.04.2012)
Published in Mobile DNA (30.04.2012)
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Journal Article
The UCSC Genome Browser database: 2015 update
Rosenbloom, Kate R, Armstrong, Joel, Barber, Galt P, Casper, Jonathan, Clawson, Hiram, Diekhans, Mark, Dreszer, Timothy R, Fujita, Pauline A, Guruvadoo, Luvina, Haeussler, Maximilian, Harte, Rachel A, Heitner, Steve, Hickey, Glenn, Hinrichs, Angie S, Hubley, Robert, Karolchik, Donna, Learned, Katrina, Lee, Brian T, Li, Chin H, Miga, Karen H, Nguyen, Ngan, Paten, Benedict, Raney, Brian J, Smit, Arian F A, Speir, Matthew L, Zweig, Ann S, Haussler, David, Kuhn, Robert M, Kent, W James
Published in Nucleic acids research (28.01.2015)
Published in Nucleic acids research (28.01.2015)
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Journal Article
Survey of COVID-19 Vaccine Attitudes in Predominately Minority Pregnant Women
Bonilla, Engelbert, Fogel, Joshua, Hubley, Robert, Anand, Rahul, Liu, Paul C
Published in Southern medical journal (Birmingham, Ala.) (01.08.2023)
Published in Southern medical journal (Birmingham, Ala.) (01.08.2023)
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