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Desnues, Christelle, Rodriguez-Brito, Beltran, Rayhawk, Steve, Kelley, Scott, Tran, Tuong, Haynes, Matthew, Liu, Hong, Furlan, Mike, Wegley, Linda, Chau, Betty, Ruan, Yijun, Hall, Dana, Angly, Florent E., Edwards, Robert A., Li, Linlin, Thurber, Rebecca Vega, Reid, R. Pamela, Siefert, Janet, Souza, Valeria, Valentine, David L., Swan, Brandon K., Breitbart, Mya and Rohwer, Forest (2008) Biodiversity and biogeography of phages in modern stromatolites and thrombolites. Nature, 452 7185: 340-343. doi:10.1038/nature06735 53   108 Cited 115 times in Scopus115 3
Kelly, Linda Wegley, Barott, Katie L., Dinsdale, Elizabeth, Friedlander, Alan M., Nosrat, Bahador, Obura, David, Sala, Enric, Sandin, Stuart A., Smith, Jennifer E., Vermeij, Mark J. A., Williams, Gareth J., Willner, Dana and Rohwer, Forest (2012) Black reefs: Iron-induced phase shifts on coral reefs. ISME Journal, 6 3: 638-649. doi:10.1038/ismej.2011.114 58   13 Cited 12 times in Scopus12 20
Ng, Terry Fei Fan, Willner, Dana L., Lim, Yan Wei, Schmieder, Robert, Chau, Betty, Nilsson, Christina, Anthony, Simon, Ruan, Yijun, Rohwer, Forest and Breitbart, Mya (2011) Broad surveys of DNA viral diversity obtained through viral metagenomics of mosquitoes. PLoS One, 6 6: Article number e20579. doi:10.1371/journal.pone.0020579 58   61 Cited 60 times in Scopus60 8
Willner, Dana, Haynes, Matthew R., Furlan, Mike, Hanson, Nicole, Kirby, Breeann, Lim, Yan Wei, Rainey, Paul B., Schmieder, Robert, Youle, Merry, Conrad, Douglas and Rohwer, Forest (2012) Case studies of the spatial heterogeneity of DNA viruses in the cystic fibrosis lung. American Journal of Respiratory Cell and Molecular Biology, 46 2: 127-131. doi:10.1165/rcmb.2011-0253OC 60   25 Cited 29 times in Scopus29 11
Wegley, Linda, Yu, Yanan, Breitbart, Mya, Casas, Veronica, Kline, David I. and Rohwer, Forest (2004) Coral-associated Archaea. Marine Ecology Progress Series, 273 89-96. doi:10.3354/meps273089 80   81 Cited 78 times in Scopus78 3
Dinsdale, Elizabeth A., Edwards, Robert A., Hall, Dana, Angly, Florent, Breitbart, Mya, Brulc, Jennifer M., Furlan, Mike, Desnues, Christelle, Haynes, Matthew, Li, Lin Lin, McDaniel, Lauren, Moran, Mary Ann, Nelson, Karen E., Nilsson, Christina, Olson, Robert, Paul, John, Brito, Beltran R., Ruan, Yi Jun, Swan, Brandon K., Stevens, Rick, Valentine, David L., Thurber, Rebecca V., Wegley, Linda, White, Bryan A. and Rohwer, Forest (2008) Functional metagenomic profiling of nine biomes. Nature, 452 7187: 629-632. doi:10.1038/nature06810 96   381 Cited 402 times in Scopus402 8
Dinsdale, Elizabeth A., Edwards, Robert A., Hall, Dana, Angly, Florent, Breitbart, Mya, Brulc, Jennifer M., Furlan, Mike, Desnues, Christelle, Haynes, Matthew, Li, Lin Lin, McDaniel, Lauren, Moran, Mary Ann, Nelson, Karen E., Nilsson, Christina, Olson, Robert, Paul, John, Brito, Beltran R., Ruan, Yi Jun, Swan, Brandon K., Stevens, Rick, Valentine, David L., Thurber, Rebecca V., Wegley, Linda, White, Bryan A. and Rohwer, Forest (2008) Functional metagenomic profiling of nine biomes. Nature, 455 7214: 830-830. doi:10.1038/nature07346 49   7 Cited 3 times in Scopus3 0
Angly, Florent E., Willner, Dana, Rohwer, Forest, Hugenholtz, Philip and Tyson, Gene W. (2012) Grinder: a versatile amplicon and shotgun sequence simulator. Nucleic Acids Research, 40 12: e94.1-e94.8. doi:10.1093/nar/gks251 95 52 26 Cited 31 times in Scopus31 2
Smith, Jennifer E., Shaw, Morrigan, Edwards, Rob A., Obura, David, Pantos, Olga, Sala, Enric, Sandin, Stuart A., Smriga, Steven, Hatay, Mark and Rohwer, Forest L. (2006) Indirect effects of algae on coral: Algae-mediated, microbe-induced coral mortality. Ecology Letters, 9 7: 835-845. doi:10.1111/j.1461-0248.2006.00937.x 63   167 Cited 167 times in Scopus167 22
Thurber, Rebecca L. Vega, Barott, Katie L., Hall, Dana, Liu, Hong, Rodriguez-Mueller, Beltran, Desnues, Christelle, Edwards, Robert A., Haynes, Matthew, Angly, Florent E., Wegley, Linda and Rohwer, Forest L. (2008) Metagenomic analysis indicates that stressors induce production of herpes-like viruses in the coral Porites compressa. Proceedings of the National Academy of Sciences of the United States of America, 105 47: 18413-18418. doi:10.1073/pnas.0808985105 40   70 Cited 76 times in Scopus76 17
Willner, Dana, Furlan, Mike, Haynes, Matthew, Schmieder, Robert, Angly, Florent E., Silva, Joas, Tammadoni, Sassan, Nosrat, Bahador, Conrad, Douglas and Rohwer, Forest (2009) Metagenomic analysis of respiratory tract DNA viral communities in cystic fibrosis and non-cystic fibrosis individuals. PLoS One, 4 10: 1-12. doi:10.1371/journal.pone.0007370 44   118 Cited 122 times in Scopus122 15
Thurber, Rebecca Vega, Willner-Hall, Dana, Rodriguez-Mueller, Christelle, Desnues, Christelle, Edwards, Robert A., Angly, Florent, Dinsdale, Elizabeth, Kelly, Linda and Rohwer, Forest (2009) Metagenomic analysis of stressed coral holobionts. Environmental Microbiology, 11 8: 2148-2163. doi:10.1111/j.1462-2920.2009.01935.x 53   101 Cited 124 times in Scopus124 0
Willner, Dana, Furlan, Mike, Schmieder, Robert, Grasis, Juris A., Pride, David T., Relman, David A., Angly, Florent E., McDole, Tracey, Mariella, Ray P., Rohwer, Forest and Haynes, Matthew (2011) Metagenomic detection of phage-encoded platelet-binding factors in the human oral cavity. Proceedings of the National Academy of Sciences of the United States of America, 108 Supp. 1: 4547-4553. doi:10.1073/pnas.1000089107 72   36 Cited 37 times in Scopus37 0
Lim, Yan Wei, Schmieder, Robert, Haynes, Matthew, Willner, Dana, Furlan, Mike, Youle, Merry, Abbott, Katelynn, Edwards, Robert, Evangelista, Jose, Conrad, Douglas and Rohwer, Forest (2013) Metagenomics and metatranscriptomics: windows on CF-associated viral and microbial communities. Journal of Cystic Fibrosis, 12 2: 154-164. doi:10.1016/j.jcf.2012.07.009 51   8 Cited 19 times in Scopus19 1
Willner, Dana, Thurber, Rebecca Vega and Rohwer, Forest (2009) Metagenomic signatures of 86 microbial and viral metagenomes. Environmental Microbiology, 11 7: 1752-1766. doi:10.1111/j.1462-2920.2009.01901.x 50   55 Cited 60 times in Scopus60 3
He, Shaomei, Kunin, Victor, Haynes, Matthew, Martin, Hector Garcia, Ivanova, Natalia, Rohwer, Forest, Hugenholtz, Philip and McMahon, Katherine D. (2010) Metatranscriptomic array analysis of 'Candidatus Accumulibacter phosphatis'-enriched enhanced biological phosphorus removal sludge. Environmental Microbiology, 12 5: 1205-1217. doi:10.1111/j.1462-2920.2010.02163.x 72   24 Cited 27 times in Scopus27 3
Dinsdale, Elizabeth A., Pantos, Olga, Smriga, Steven, Edwards, Robert A., Angly, Florent, Wegley, Linda, Hatay, Mark, Hall, Dana, Brown, Elysa, Haynes, Matthew, Krause, Lutz, Sala, Enric, Sandin, Stuart A., Thurber, Rebecca Vega, Willis, Bette L., Azam, Farooq, Knowlton, Nancy and Rohwer, Forest (2008) Microbial ecology of four coral atolls in the Northern Line Islands. PLoS ONE, 3 2: e1584-1-e1584-17. doi:10.1371/journal.pone.0001584 84   142 Cited 158 times in Scopus158 24
Cassman, Noriko, Prieto-Davo, Alejandra, Walsh, Kevin, Silva, Genivaldo G. Z., Angly, Florent, Akhter, Sajia, Barott, Katie, Busch, Julia, McDole, Tracey, Haggerty, J. Matthew, Willner, Dana, Alarcon, Gadiel, Ulloa, Osvaldo, DeLong, Edward F., Dutilh, Bas E., Rohwer, Forest and Dinsdale, Elizabeth A. (2012) Oxygen minimum zones harbour novel viral communities with low diversity. Environmental Microbiology, 14 11: 3043-3065. doi:10.1111/j.1462-2920.2012.02891.x 38   11 Cited 10 times in Scopus10 7
Kuntz, Neilan M., Kline, David I., Sandin, Stuart A. and Rohwer, Forest (2005) Pathologies and mortality rates caused by organic carbon and nutrient stressors in three Caribbean coral species. Marine Ecology - Progress Series, 294 173-180. doi:10.3354/meps294173 71   63 Cited 65 times in Scopus65 0
Angly, Florent, Rodriguez-Brito, Beltran, Bangor, David, McNairnie, Pat, Breitbart, Mya, Salamon, Peter, Felts, Ben, Nulton, James, Mahaffy, Joseph and Rohwer, Forest (2005) PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information. BMC Bioinformatics, 6 . doi:10.1186/1471-2105-6-41 52   88 Cited 92 times in Scopus92 0
Hoffmann, Karl Heinz, Rodriguez-Brito, Beltran, Breitbart, Mya, Bangor, David, Angly, Florent, Felts, Ben, Nulton, James, Rohwer, Forest and Salamon, Peter (2007) Power law rank-abundance models for marine phage communities. Fems Microbiology Letters, 273 2: 224-228. doi:10.1111/j.1574-6968.2007.00790.x 25   12 Cited 14 times in Scopus14 0
Kline, David I., Kuntz, Neilan M., Breitbart, Mya, Knowlton, Nancy and Rohwer, Forest (2006) Role of Elevated Organic Carbon Levels and Microbial Activity in Coral Mortality. Marine Ecology Progress Series, 314 119-125. doi:10.3354/meps314119 81   99 Cited 101 times in Scopus101 0
Willner, Dana, Haynes, Matthew R., Furlan, Mike, Schmieder, Robert, Lim, Yan Wei, Rainey, Paul B., Rohwer, Forest and Conrad, Douglas (2012) Spatial distribution of microbial communities in the cystic fibrosis lung. ISME Journal, 6 2: 471-474. doi:10.1038/ismej.2011.104 53   36 Cited 44 times in Scopus44 12
Kline, David I., Bryant, John, Kisflaudy, Eddie, Rohwer, Gary, Nostropaur, Fernando, Grayson, Jodi, Knowlton, Nancy and Rohwer, Forest (2006) The Aquatic Automated Dosing and Maintenance System (AADAMS). Limnology and Oceanography: Methods, 4 JUN.: 184-192. 88   1 Cited 2 times in Scopus2
Angly, Florent E., Willner, Dana, Prieto-Davó, Alejandra, Edwards, Robert A., Schmieder, Robert, Vega-Thurber, Rebecca, Antonopoulos, Dionysios A., Barott, Katie, Cottrell, Matthew T., Desnues, Christelle, Dinsdale, Elizabeth A., Furlan, Mike, Haynes, Matthew, Henn, Matthew R., Hu, Yongfei, Kirchman, David L., McDole, Tracey, McPherson, John D., Meyer, John D., Miller, R. Michael, Mundt, Egbert, Naviaux, Robert K., Rodriguez-Mueller, Beltran, Stevens, Rick, Wegley, Linda, Zhang, Lixin, Zhu, Baoli and Rohwer, Forest (2009) The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes. PLoS Computational Biology, 5 12: e1000593.1-e1000593.10. doi:10.1371/journal.pcbi.1000593 49   78 Cited 82 times in Scopus82 2
Angly, Florent E., Felts, Ben, Breitbart, Mya, Salamon, Peter, Edwards, Robert A., Carlson, Craig, Chan, Amy M., Haynes, Matthew, Kelley, Scott, Liu, Hong, Mahaffy, Joseph M., Mueller, Jennifer E., Nulton, Jim, Olson, Robert, Parsons, Rachel, Rayhawk, Steve, Suttle, Curtis A. and Rohwer, Forest (2006) The marine viromes of four oceanic regions. PLoS Biology, 4 11: 2121-2131. doi:10.1371/journal.pbio.0040368 42   421 Cited 353 times in Scopus353 35
Breitbart, Mya, Haynes, Matthew, Kelley, Scott, Angly, Florent, Edwards, Robert A., Felts, Ben, Mahaffy, Joseph M., Mueller, Jennifer, Nulton, James, Rayhawk, Steve, Rodriguez-Brito, Beltran, Salamon, Peter and Rohwer, Forest (2008) Viral diversity and dynamics in an infant gut. Research in Microbiology, 159 5: 367-373. doi:10.1016/j.resmic.2008.04.006 28   90 Cited 90 times in Scopus90 14
Willner, Dana, Desnues, Christelle and Rohwer, Forest (2011). Viral metagenomics: From fish slime to the world. In Robert W. Li (Ed.), Metagenomics and its applications in agriculture, biomedicine, and environmental studies (pp. 337-366) Hauppauge, NY, U.S.A.: Nova Scientific Publishers. 303  
Reyes, Alejandro, Haynes, Matthew, Hanson, Nicole, Angly, Florent E., Heath, Andrew C., Rohwer, Forest and Gordon, Jeffrey I. (2010) Viruses in the faecal microbiota of monozygotic twins and their mothers. Nature, 466 7304: 334-338. doi:10.1038/nature09199 59   244 Cited 240 times in Scopus240 76
Casas, Veronica, Kline, David A., Wegley , Linda, Yu, Yanan, Breitbart, Mya and Rohwer, Forest (2004) Widespread association of a Rickettsiales-like bacterium with reef-building corals. Environmental microbiology, 6 11: 1137-1148. doi:10.1111/j.1462-2920.2004.00647.x 53   33 Cited 34 times in Scopus34 0