Identifying cognate binding pairs among a large set of paralogs: the case of PE/PPE proteins of Mycobacterium tuberculosis.

by Robert Riley, Matteo Pellegrini, David Eisenberg
Published 2008-09-01

Management of Calcified Coronary Lesions

by Khaled Al-Shaibi, Aditya Bharadwaj, Atul Mathur, Ashish Jaikishen, Robert Riley
Published 2024-01-01

Genial tubercle position and genioglossus advancement in obstructive sleep apnea (OSA) treatment: a systematic review

by Edward T. Chang, Yong-Dae Kwon, Junho Jung, Robson Capasso, Robert Riley, Stanley C. Liu, Macario Camacho
Published 2019-09-01

T-Toxin Virulence Genes: Unconnected Dots in a Sea of Repeats

by Sajeet Haridas, Jennifer B. González, Robert Riley, Maxim Koriabine, Mi Yan, Vivian Ng, Adriana Rightmyer, Igor V. Grigoriev, Scott E. Baker, B. Gillian Turgeon
Published 2023-04-01

Bacterial endosymbionts influence host sexuality and reveal reproductive genes of early divergent fungi

by Stephen J. Mondo, Olga A. Lastovetsky, Maria L. Gaspar, Nicole H. Schwardt, Colin C. Barber, Robert Riley, Hui Sun, Igor V. Grigoriev, Teresa E. Pawlowska
Published 2017-11-01

Visual comparative omics of fungi for plant biomass deconstruction

by Shingo Miyauchi, David Navarro, David Navarro, Igor V. Grigoriev, Anna Lipzen, Robert Riley, Didier Chevret, Sacha Grisel, Jean-Guy BERRIN, Bernard Henrissat, Bernard Henrissat, Bernard Henrissat, Marie-Noëlle Rosso
Published 2016-08-01

HT-SIP: a semi-automated stable isotope probing pipeline identifies cross-kingdom interactions in the hyphosphere of arbuscular mycorrhizal fungi

by Erin E. Nuccio, Steven J. Blazewicz, Marissa Lafler, Ashley N. Campbell, Anne Kakouridis, Jeffrey A. Kimbrel, Jessica Wollard, Dariia Vyshenska, Robert Riley, Andy Tomatsu, Rachel Hestrin, Rex R. Malmstrom, Mary Firestone, Jennifer Pett-Ridge
Published 2022-11-01

Evolutionary instability of CUG-Leu in the genetic code of budding yeasts

by Tadeusz Krassowski, Aisling Y. Coughlan, Xing-Xing Shen, Xiaofan Zhou, Jacek Kominek, Dana A. Opulente, Robert Riley, Igor V. Grigoriev, Nikunj Maheshwari, Denis C. Shields, Cletus P. Kurtzman, Chris Todd Hittinger, Antonis Rokas, Kenneth H. Wolfe
Published 2018-05-01

Comparative genomics of Mollicutes-related endobacteria supports a late invasion into Mucoromycota fungi

by Reid Longley, Aaron Robinson, Julian A. Liber, Abigail E. Bryson, Demosthenes P. Morales, Kurt LaButti, Robert Riley, Stephen J. Mondo, Alan Kuo, Yuko Yoshinaga, Chris Daum, Kerrie Barry, Igor V. Grigoriev, Alessandro Desirò, Patrick S. G. Chain, Gregory Bonito
Published 2023-09-01

Terabase-Scale Coassembly of a Tropical Soil Microbiome

by Robert Riley, Robert M. Bowers, Antonio Pedro Camargo, Ashley Campbell, Rob Egan, Emiley A. Eloe-Fadrosh, Brian Foster, Steven Hofmeyr, Marcel Huntemann, Matthew Kellom, Jeffrey A. Kimbrel, Leonid Oliker, Katherine Yelick, Jennifer Pett-Ridge, Asaf Salamov, Neha J. Varghese, Alicia Clum
Published 2023-08-01

Population genomics provides insights into the genetic basis of adaptive evolution in the mushroom-forming fungus Lentinula edodes

by Jingcheng Zhang, Nan Shen, Chuang Li, Xingjie Xiang, Gaolei Liu, Ying Gui, Sean Patev, David S. Hibbett, Kerrie Barry, William Andreopoulos, Anna Lipzen, Robert Riley, Guifen He, Mi Yan, Igor V. Grigoriev, Hoi Shan Kwan, Man Kit Cheung, Yinbing Bian, Yang Xiao
Published 2022-05-01

A standardized quantitative analysis strategy for stable isotope probing metagenomics

by Dariia Vyshenska, Pranav Sampara, Kanwar Singh, Andy Tomatsu, W. Berkeley Kauffman, Erin E. Nuccio, Steven J. Blazewicz, Jennifer Pett-Ridge, Katherine B. Louie, Neha Varghese, Matthew Kellom, Alicia Clum, Robert Riley, Simon Roux, Emiley A. Eloe-Fadrosh, Ryan M. Ziels, Rex R. Malmstrom
Published 2023-08-01

Phylogenomics and Comparative Genomics Highlight Specific Genetic Features in <i>Ganoderma</i> Species

by Yi-Fei Sun, Annie Lebreton, Jia-Hui Xing, Yu-Xuan Fang, Jing Si, Emmanuelle Morin, Shingo Miyauchi, Elodie Drula, Steven Ahrendt, Kelly Cobaugh, Anna Lipzen, Maxim Koriabine, Robert Riley, Annegret Kohler, Kerrie Barry, Bernard Henrissat, Igor V. Grigoriev, Francis M. Martin, Bao-Kai Cui
Published 2022-03-01

Long-read metagenomics of soil communities reveals phylum-specific secondary metabolite dynamics

by Marc W. Van Goethem, Andrew R. Osborn, Benjamin P. Bowen, Peter F. Andeer, Tami L. Swenson, Alicia Clum, Robert Riley, Guifen He, Maxim Koriabine, Laura Sandor, Mi Yan, Chris G. Daum, Yuko Yoshinaga, Thulani P. Makhalanyane, Ferran Garcia-Pichel, Axel Visel, Len A. Pennacchio, Ronan C. O’Malley, Trent R. Northen
Published 2021-11-01

Genetic determinants of endophytism in the Arabidopsis root mycobiome

by Fantin Mesny, Shingo Miyauchi, Thorsten Thiergart, Brigitte Pickel, Lea Atanasova, Magnus Karlsson, Bruno Hüttel, Kerrie W. Barry, Sajeet Haridas, Cindy Chen, Diane Bauer, William Andreopoulos, Jasmyn Pangilinan, Kurt LaButti, Robert Riley, Anna Lipzen, Alicia Clum, Elodie Drula, Bernard Henrissat, Annegret Kohler, Igor V. Grigoriev, Francis M. Martin, Stéphane Hacquard
Published 2021-12-01

Author Correction: Genome sequencing of Rigidoporus microporus provides insights on genes important for wood decay, latex tolerance and interspecific fungal interactions

by Abbot O. Oghenekaro, Andriy Kovalchuk, Tommaso Raffaello, Susana Camarero, Markus Gressler, Bernard Henrissat, Juna Lee, Mengxia Liu, Angel T. Martínez, Otto Miettinen, Sirma Mihaltcheva, Jasmyn Pangilinan, Fei Ren, Robert Riley, Francisco Javier Ruiz-Dueñas, Ana Serrano, Michael R. Thon, Zilan Wen, Zhen Zeng, Kerrie Barry, Igor V. Grigoriev, Francis Martin, Fred O. Asiegbu
Published 2020-10-01

Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass

by Shingo Miyauchi, Anaïs Rancon, Elodie Drula, Hayat Hage, Delphine Chaduli, Anne Favel, Sacha Grisel, Bernard Henrissat, Isabelle Herpoël-Gimbert, Francisco J. Ruiz-Dueñas, Didier Chevret, Matthieu Hainaut, Junyan Lin, Mei Wang, Jasmyn Pangilinan, Anna Lipzen, Laurence Lesage-Meessen, David Navarro, Robert Riley, Igor V. Grigoriev, Simeng Zhou, Sana Raouche, Marie-Noëlle Rosso
Published 2018-07-01

Draft genome sequence of a monokaryotic model brown-rot fungus Postia (Rhodonia) placenta SB12

by Jill Gaskell, Phil Kersten, Luis F. Larrondo, Paulo Canessa, Diego Martinez, David Hibbett, Monika Schmoll, Christian P. Kubicek, Angel T. Martinez, Jagjit Yadav, Emma Master, Jon Karl Magnuson, Debbie Yaver, Randy Berka, Kathleen Lail, Cindy Chen, Kurt LaButti, Matt Nolan, Anna Lipzen, Andrea Aerts, Robert Riley, Kerrie Barry, Bernard Henrissat, Robert Blanchette, Igor V. Grigoriev, Dan Cullen
Published 2017-12-01

A comparative genomics study of 23 Aspergillus species from section Flavi

by Inge Kjærbølling, Tammi Vesth, Jens C. Frisvad, Jane L. Nybo, Sebastian Theobald, Sara Kildgaard, Thomas Isbrandt Petersen, Alan Kuo, Atsushi Sato, Ellen K. Lyhne, Martin E. Kogle, Ad Wiebenga, Roland S. Kun, Ronnie J. M. Lubbers, Miia R. Mäkelä, Kerrie Barry, Mansi Chovatia, Alicia Clum, Chris Daum, Sajeet Haridas, Guifen He, Kurt LaButti, Anna Lipzen, Stephen Mondo, Jasmyn Pangilinan, Robert Riley, Asaf Salamov, Blake A. Simmons, Jon K. Magnuson, Bernard Henrissat, Uffe H. Mortensen, Thomas O. Larsen, Ronald P. de Vries, Igor V. Grigoriev, Masayuki Machida, Scott E. Baker, Mikael R. Andersen
Published 2020-02-01

Genome-scale model development and genomic sequencing of the oleaginous clade Lipomyces

by Jeffrey J. Czajka, Jeffrey J. Czajka, Yichao Han, Yichao Han, Joonhoon Kim, Joonhoon Kim, Joonhoon Kim, Stephen J. Mondo, Stephen J. Mondo, Stephen J. Mondo, Beth A. Hofstad, Beth A. Hofstad, AnaLaura Robles, AnaLaura Robles, Sajeet Haridas, Robert Riley, Kurt LaButti, Jasmyn Pangilinan, William Andreopoulos, Anna Lipzen, Juying Yan, Mei Wang, Vivian Ng, Igor V. Grigoriev, Igor V. Grigoriev, Joseph W. Spatafora, Jon K. Magnuson, Jon K. Magnuson, Jon K. Magnuson, Scott E. Baker, Scott E. Baker, Scott E. Baker, Kyle R. Pomraning, Kyle R. Pomraning
Published 2024-04-01