The human virome: assembly, composition and host interactions von Liang, Guanxiang, Bushman, Frederic D.

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Retroviral Insertional Mutagenesis in Humans: Evidence for Four Genetic Mechanisms Promoting Expansion of Cell Clones von Bushman, Frederic D.

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Rhythmicity of the intestinal microbiota is regulated by gender and the host circadian clock von Liang, Xue, Bushman, Frederic D., FitzGerald, Garret A.

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Inflammation, Antibiotics, and Diet as Environmental Stressors of the Gut Microbiome in Pediatric Crohn’s Disease von Lewis, James D., Chen, Eric Z., Baldassano, Robert N., Otley, Anthony R., Griffiths, Anne M., Lee, Dale, Bittinger, Kyle, Bailey, Aubrey, Friedman, Elliot S., Hoffmann, Christian, Albenberg, Lindsey, Sinha, Rohini, Compher, Charlene, Gilroy, Erin, Nessel, Lisa, Grant, Amy, Chehoud, Christel, Li, Hongzhe, Wu, Gary D., Bushman, Frederic D.

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Gene therapy targeting haematopoietic stem cells for inherited diseases: progress and challenges von Cavazzana, Marina, Bushman, Frederic D., Miccio, Annarita, André-Schmutz, Isabelle, Six, Emmanuelle

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Rapid evolution of the human gut virome von Minot, Samuel, Bryson, Alexandra, Chehoud, Christel, Wu, Gary D., Lewis, James D., Bushman, Frederic D.

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Archaea and fungi of the human gut microbiome: correlations with diet and bacterial residents von Hoffmann, Christian, Dollive, Serena, Grunberg, Stephanie, Chen, Jun, Li, Hongzhe, Wu, Gary D, Lewis, James D, Bushman, Frederic D

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Fungi of the murine gut: episodic variation and proliferation during antibiotic treatment von Dollive, Serena, Chen, Ying-Yu, Grunberg, Stephanie, Bittinger, Kyle, Hoffmann, Christian, Vandivier, Lee, Cuff, Christopher, Lewis, James D, Wu, Gary D, Bushman, Frederic D

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Role of dietary fiber in the recovery of the human gut microbiome and its metabolome von Tanes, Ceylan, Bittinger, Kyle, Gao, Yuan, Friedman, Elliot S., Nessel, Lisa, Roy Paladhi, Unmesha, Chau, Lillian, Panfen, Erika, Fischbach, Michael A., Braun, Jonathan, Xavier, Ramnik J., Clish, Clary B., Li, Hongzhe, Bushman, Frederic D., Lewis, James D., Wu, Gary D.

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Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA von Kelly, Brendan J, Gross, Robert, Bittinger, Kyle, Sherrill-Mix, Scott, Lewis, James D, Collman, Ronald G, Bushman, Frederic D, Li, Hongzhe

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PyNAST: a flexible tool for aligning sequences to a template alignment von Caporaso, J. Gregory, Bittinger, Kyle, Bushman, Frederic D., DeSantis, Todd Z., Andersen, Gary L., Knight, Rob

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Disordered microbial communities in the upper respiratory tract of cigarette smokers von Charlson, Emily S, Chen, Jun, Custers-Allen, Rebecca, Bittinger, Kyle, Li, Hongzhe, Sinha, Rohini, Hwang, Jennifer, Bushman, Frederic D, Collman, Ronald G

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Correlation Between Intraluminal Oxygen Gradient and Radial Partitioning of Intestinal Microbiota von Albenberg, Lindsey, Esipova, Tatiana V, Judge, Colleen P, Bittinger, Kyle, Chen, Jun, Laughlin, Alice, Grunberg, Stephanie, Baldassano, Robert N, Lewis, James D, Li, Hongzhe, Thom, Stephen R, Bushman, Frederic D, Vinogradov, Sergei A, Wu, Gary D

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The human gut virome: inter-individual variation and dynamic response to diet von Minot, Samuel, Sinha, Rohini, Chen, Jun, Li, Hongzhe, Keilbaugh, Sue A, Wu, Gary D, Lewis, James D, Bushman, Frederic D

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Topographical Continuity of Bacterial Populations in the Healthy Human Respiratory Tract von CHARLSON, Emily S, BITTINGER, Kyle, HAAS, Andrew R, FITZGERALD, Ayannah S, FRANK, Ian, YADAV, Anjana, BUSHMAN, Frederic D, COLLMAN, Ronald G

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A quantitative approach for measuring the reservoir of latent HIV-1 proviruses von Bruner, Katherine M., Wang, Zheng, Simonetti, Francesco R., Bender, Alexandra M., Kwon, Kyungyoon J., Sengupta, Srona, Fray, Emily J., Beg, Subul A., Antar, Annukka A. R., Jenike, Katharine M., Bertagnolli, Lynn N., Capoferri, Adam A., Kufera, Joshua T., Timmons, Andrew, Nobles, Christopher, Gregg, John, Wada, Nikolas, Ho, Ya-Chi, Zhang, Hao, Margolick, Joseph B., Blankson, Joel N., Deeks, Steven G., Bushman, Frederic D., Siliciano, Janet D., Laird, Gregory M., Siliciano, Robert F.

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Evaluating the state of the science for adeno-associated virus integration: An integrated perspective von Sabatino, Denise E., Bushman, Frederic D., Chandler, Randy J., Crystal, Ronald G., Davidson, Beverly L., Dolmetsch, Ricardo, Eggan, Kevin C., Gao, Guangping, Gil-Farina, Irene, Kay, Mark A., McCarty, Douglas M., Montini, Eugenio, Ndu, Adora, Yuan, Jing

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HIV-1 capsid-cyclophilin interactions determine nuclear import pathway, integration targeting and replication efficiency von Schaller, Torsten, Ocwieja, Karen E, Rasaiyaah, Jane, Price, Amanda J, Brady, Troy L, Roth, Shoshannah L, Hué, Stéphane, Fletcher, Adam J, Lee, KyeongEun, KewalRamani, Vineet N, Noursadeghi, Mahdad, Jenner, Richard G, James, Leo C, Bushman, Frederic D, Towers, Greg J

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The stepwise assembly of the neonatal virome is modulated by breastfeeding von Liang, Guanxiang, Zhao, Chunyu, Zhang, Huanjia, Mattei, Lisa, Sherrill-Mix, Scott, Bittinger, Kyle, Kessler, Lyanna R., Wu, Gary D., Baldassano, Robert N., DeRusso, Patricia, Ford, Eileen, Elovitz, Michal A., Kelly, Matthew S., Patel, Mohamed Z., Mazhani, Tiny, Gerber, Jeffrey S., Kelly, Andrea, Zemel, Babette S., Bushman, Frederic D.

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Viral communities of the human gut: metagenomic analysis of composition and dynamics von Aggarwala, Varun, Liang, Guanxiang, Bushman, Frederic D

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