Fungal regulatory evolution: cis and trans in the balance

by Thompson, Dawn Anne, Regev, Aviv
Published 2012

From elements to modules: regulatory evolution in Ascomycota fungi

by Wohlbach, Dana J., Thompson, Dawn Anne, Gaschi, Audrey P., Regev, Aviv
Published 2012

The Role of Nucleosome Positioning in the Evolution of Gene Regulation

by Tsankov, Alexander M., Thompson, Dawn Anne, Socha, Amanda, Regev, Aviv, Rando, Oliver J.
Published 2010

Gene duplication and the evolution of ribosomal protein gene regulation in yeast

by Regev, Aviv, Wapinski, Ilan, Pfiffner, Jenna, French, Courtney, Socha, Amanda, Thompson, Dawn Anne
Published 2011

Comprehensive comparative analysis of strand-specific RNA sequencing methods

by Regev, Aviv, Levin, Joshua Z., Yassour, Moran, Adiconis, Xian, Nusbaum, Chad, Thompson, Dawn Anne, Friedman, Nir, Gnirke, Andreas
Published 2012

Y MAP: a pipeline for visualization of copy number variation and loss of heterozygosity in eukaryotic pathogens

by Abbey, Darren A., Funt, Jason, Lurie-Weinberger, Mor N., Thompson, Dawn A., Regev, Aviv, Myers, Chad L., Berman, Judith
Published 2014

Arboretum: Reconstruction and analysis of the evolutionary history of condition-specific transcriptional modules

by Kellis, Manolis, Regev, Aviv, Roy, Sushmita, Wapinski, Ilan, Pfiffner, Jenna, French, Courtney, Socha, Amanda, Konieczka, Jay, Habib, Naomi, Thompson, Dawn
Published 2014

Strand-specific RNA sequencing reveals extensive regulated long antisense transcripts that are conserved across yeast species

by Yassour, Moran, Pfiffner, Jenna, Levin, Joshua Z., Adiconis, Xian, Gnirke, Andreas, Nusbaum, Chad, Thompson, Dawn-Anne, Friedman, Nir, Regev, Aviv, Yassour, Moran
Published 2012

Development and evaluation of RNA-seq methods

by Levin, Joshua Z., Adiconis, Xian, Yassour, Moran, Thompson, Dawn, Guttman, Mitchell, Berger, Michael F., Fan, Lin, Friedman, Nir, Nusbaum, Chad, Gnirke, Andreas, Regev, Aviv
Published 2012

Inference and Evolutionary Analysis of Genome-Scale Regulatory Networks in Large Phylogenies

by Koch, Christopher, Konieczka, Jay, Delorey, Toni, Socha, Amanda, Davis, Kathleen, Knaack, Sara A., Thompson, Dawn, O'Shea, Erin K., Regev, Aviv, Roy, Sushmita, Lyons, Ana M.
Published 2018

Determinants of Divergent Adaptation and Dobzhansky-Muller Interaction in Experimental Yeast Populations

by Anderson, James B., Funt, Jason, Thompson, Dawn Anne, Prabhu, Snehit, Socha, Amanda, Sirjusingh, Caroline, Dettman, Jeremy R., Parreiras, Lucas, Guttman, David S., Regev, Aviv, Kohn, Linda M.
Published 2015

Evolutionary principles of modular gene regulation in yeasts

by Thompson, Dawn A., Roy, Sushmita, Chan, Michelle Mei Wah, Styczynsky, Mark P., Pfiffner, Jenna, French, Courtney, Socha, Amanda, Thielke, Anne, Napolitano, Sara, Muller, Paul, Kellis, Manolis, Konieczka, Jay, Wapinski, Ilan, Regev, Aviv
Published 2014

Comparative analysis of RNA sequencing methods for degraded or low-input samples

by Adiconis, Xian, Borges-Rivera, Diego, Satija, Rahul, DeLuca, David S., Busby, Michele A., Berlin, Aaron M., Sivachenko, Andrey, Thompson, Dawn Anne, Wysoker, Alec, Fennell, Timothy, Gnirke, Andreas, Pochet, Nathalie, Regev, Aviv, Levin, Joshua Z.
Published 2014

Comparative analysis of RNA sequencing methods for degraded or low-input samples

by Adiconis, Xian, Borges-Rivera, Diego, Satija, Rahul, DeLuca, David S., Busby, Michele A., Berlin, Aaron M., Sivachenko, Andrey, Thompson, Dawn Anne, Wysoker, Alec, Fennell, Timothy, Gnirke, Andreas, Pochet, Nathalie, Regev, Aviv, Levin, Joshua Z.
Published 2014

The evolution of drug resistance in clinical isolates of Candida albicans

by Abbey, Darren A., Issi, Luca, Guiducci, Candace, Martinez, Diego A, Delorey, Toni, Li, Bi yu, White, Theodore C, Cuomo, Christina, Rao, Reeta P, Berman, Judith, Thompson, Dawn A, Regev, Aviv, Ford, Christopher B., Funt, Jason
Published 2015

Convergent Evolution of Calcineurin Pathway Roles in Thermotolerance and Virulence in Candida glabrata

by Regev, Aviv, Chen, Ying-Lien, Konieczka, Jay, Springer, Deborah J., Bowen, Samantha E., Zhang, Jing, Silao, Fitz Gerald S., Bungay, Alice Alma C., Bigol, Ursela G., Nicolas, Marilou G., Abraham, Soman N., Thompson, Dawn A., Heitman, Joseph
Published 2013

Mitochondrial dysfunction remodels one-carbon metabolism in human cells

by Bao, Xiaoyan Robert, Ong, Shao-En, Goldberger, Olga, Peng, Jun, Sharma, Rohit, Thompson, Dawn A, Vafai, Scott B, Cox, Andrew G, Marutani, Eizo, Ichinose, Fumito, Goessling, Wolfram, Carr, Steven A, Clish, Clary B, Mootha, Vamsi K, Regev, Aviv
Published 2016

Early-branching gut fungi possess a large, comprehensive array of biomass-degrading enzymes

by Solomon, Kevin V., Haitjema, Charles H., Henske, John K., Gilmore, Sean P., Lipzen, Anna, Brewer, Heather M., Purvine, Samuel O., Wright, Aaron T., Theodorou, Michael K., Grigoriev, Igor V., Thompson, Dawn A., O'Malley, Michelle A., Borges-Rivera, Diego Ramon, Regev, Aviv
Published 2017