Accuracy assessment of fusion transcript detection via read-mapping and de novo fusion transcript assembly-based methods

by Brian J. Haas, Alexander Dobin, Bo Li, Nicolas Stransky, Nathalie Pochet, Aviv Regev
Published 2019-10-01

Multiplexed mRNA assembly into ribonucleoprotein particles plays an operon-like role in the control of yeast cell physiology

by Rohini R Nair, Dmitry Zabezhinsky, Rita Gelin-Licht, Brian J Haas, Michael CA Dyhr, Hannah S Sperber, Chad Nusbaum, Jeffrey E Gerst
Published 2021-05-01

Transcriptomic landscape of the blastema niche in regenerating adult axolotl limbs at single-cell resolution

by Nicholas D. Leigh, Garrett S. Dunlap, Kimberly Johnson, Rachelle Mariano, Rachel Oshiro, Alan Y. Wong, Donald M. Bryant, Bess M. Miller, Alex Ratner, Andy Chen, William W. Ye, Brian J. Haas, Jessica L. Whited
Published 2018-12-01

Evolutionary dynamics of the accessory genome of Listeria monocytogenes.

by Henk C den Bakker, Christopher A Desjardins, Allison D Griggs, Joseph E Peters, Qiandong Zeng, Sarah K Young, Chinnappa D Kodira, Chandri Yandava, Theresa A Hepburn, Brian J Haas, Bruce W Birren, Martin Wiedmann
Published 2013-01-01

A Tissue-Mapped Axolotl De Novo Transcriptome Enables Identification of Limb Regeneration Factors

by Donald M. Bryant, Kimberly Johnson, Tia DiTommaso, Timothy Tickle, Matthew Brian Couger, Duygu Payzin-Dogru, Tae J. Lee, Nicholas D. Leigh, Tzu-Hsing Kuo, Francis G. Davis, Joel Bateman, Sevara Bryant, Anna R. Guzikowski, Stephanie L. Tsai, Steven Coyne, William W. Ye, Robert M. Freeman Jr., Leonid Peshkin, Clifford J. Tabin, Aviv Regev, Brian J. Haas, Jessica L. Whited
Published 2017-01-01

Genome sequence of Babesia bovis and comparative analysis of apicomplexan hemoprotozoa.

by Kelly A Brayton, Audrey O T Lau, David R Herndon, Linda Hannick, Lowell S Kappmeyer, Shawn J Berens, Shelby L Bidwell, Wendy C Brown, Jonathan Crabtree, Doug Fadrosh, Tamara Feldblum, Heather A Forberger, Brian J Haas, Jeanne M Howell, Hoda Khouri, Hean Koo, David J Mann, Junzo Norimine, Ian T Paulsen, Diana Radune, Qinghu Ren, Roger K Smith, Carlos E Suarez, Owen White, Jennifer R Wortman, Donald P Knowles, Terry F McElwain, Vishvanath M Nene
Published 2007-10-01

Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus.

by Natalie D Fedorova, Nora Khaldi, Vinita S Joardar, Rama Maiti, Paolo Amedeo, Michael J Anderson, Jonathan Crabtree, Joana C Silva, Jonathan H Badger, Ahmed Albarraq, Sam Angiuoli, Howard Bussey, Paul Bowyer, Peter J Cotty, Paul S Dyer, Amy Egan, Kevin Galens, Claire M Fraser-Liggett, Brian J Haas, Jason M Inman, Richard Kent, Sebastien Lemieux, Iran Malavazi, Joshua Orvis, Terry Roemer, Catherine M Ronning, Jaideep P Sundaram, Granger Sutton, Geoff Turner, J Craig Venter, Owen R White, Brett R Whitty, Phil Youngman, Kenneth H Wolfe, Gustavo H Goldman, Jennifer R Wortman, Bo Jiang, David W Denning, William C Nierman
Published 2008-04-01

Distinctive expansion of potential virulence genes in the genome of the oomycete fish pathogen Saprolegnia parasitica.

by Rays H Y Jiang, Irene de Bruijn, Brian J Haas, Rodrigo Belmonte, Lars Löbach, James Christie, Guido van den Ackerveken, Arnaud Bottin, Vincent Bulone, Sara M Díaz-Moreno, Bernard Dumas, Lin Fan, Elodie Gaulin, Francine Govers, Laura J Grenville-Briggs, Neil R Horner, Joshua Z Levin, Marco Mammella, Harold J G Meijer, Paul Morris, Chad Nusbaum, Stan Oome, Andrew J Phillips, David van Rooyen, Elzbieta Rzeszutek, Marcia Saraiva, Chris J Secombes, Michael F Seidl, Berend Snel, Joost H M Stassen, Sean Sykes, Sucheta Tripathy, Herbert van den Berg, Julio C Vega-Arreguin, Stephan Wawra, Sarah K Young, Qiandong Zeng, Javier Dieguez-Uribeondo, Carsten Russ, Brett M Tyler, Pieter van West
Published 2013-06-01

Comparative genomic analysis of human fungal pathogens causing paracoccidioidomycosis.

by Christopher A Desjardins, Mia D Champion, Jason W Holder, Anna Muszewska, Jonathan Goldberg, Alexandre M Bailão, Marcelo Macedo Brigido, Márcia Eliana da Silva Ferreira, Ana Maria Garcia, Marcin Grynberg, Sharvari Gujja, David I Heiman, Matthew R Henn, Chinnappa D Kodira, Henry León-Narváez, Larissa V G Longo, Li-Jun Ma, Iran Malavazi, Alisson L Matsuo, Flavia V Morais, Maristela Pereira, Sabrina Rodríguez-Brito, Sharadha Sakthikumar, Silvia M Salem-Izacc, Sean M Sykes, Marcus Melo Teixeira, Milene C Vallejo, Maria Emília Machado Telles Walter, Chandri Yandava, Sarah Young, Qiandong Zeng, Jeremy Zucker, Maria Sueli Felipe, Gustavo H Goldman, Brian J Haas, Juan G McEwen, Gustavo Nino-Vega, Rosana Puccia, Gioconda San-Blas, Celia Maria de Almeida Soares, Bruce W Birren, Christina A Cuomo
Published 2011-10-01

Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote.

by Jonathan A Eisen, Robert S Coyne, Martin Wu, Dongying Wu, Mathangi Thiagarajan, Jennifer R Wortman, Jonathan H Badger, Qinghu Ren, Paolo Amedeo, Kristie M Jones, Luke J Tallon, Arthur L Delcher, Steven L Salzberg, Joana C Silva, Brian J Haas, William H Majoros, Maryam Farzad, Jane M Carlton, Roger K Smith, Jyoti Garg, Ronald E Pearlman, Kathleen M Karrer, Lei Sun, Gerard Manning, Nels C Elde, Aaron P Turkewitz, David J Asai, David E Wilkes, Yufeng Wang, Hong Cai, Kathleen Collins, B Andrew Stewart, Suzanne R Lee, Katarzyna Wilamowska, Zasha Weinberg, Walter L Ruzzo, Dorota Wloga, Jacek Gaertig, Joseph Frankel, Che-Chia Tsao, Martin A Gorovsky, Patrick J Keeling, Ross F Waller, Nicola J Patron, J Michael Cherry, Nicholas A Stover, Cynthia J Krieger, Christina del Toro, Hilary F Ryder, Sondra C Williamson, Rebecca A Barbeau, Eileen P Hamilton, Eduardo Orias
Published 2006-09-01