Identification of mobile genetic elements with geNomad
Camargo, Antonio Pedro, Roux, Simon, Schulz, Frederik, Babinski, Michal, Xu, Yan, Hu, Bin, Chain, Patrick S. G., Nayfach, Stephen, Kyrpides, Nikos C.
Published in Nature biotechnology (01.08.2024)
Published in Nature biotechnology (01.08.2024)
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Journal Article
The Genome of Akkermansia muciniphila, a Dedicated Intestinal Mucin Degrader, and Its Use in Exploring Intestinal Metagenomes
Passel, M.W.J. van, Kant, R, Zoetendal, E.G, Plugge, C.M, Derrien, M.M.N, Malfatti, S.A, Palva, A, Vos, W.M. de, Smidt, H
Published in PloS one (03.03.2011)
Published in PloS one (03.03.2011)
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Journal Article
From telomere to telomere: The transcriptional and epigenetic state of human repeat elements
Hoyt, Savannah J, Storer, Jessica M, Hartley, Gabrielle A, Grady, Patrick G S, Gershman, Ariel, de Lima, Leonardo G, Limouse, Charles, Halabian, Reza, Wojenski, Luke, Rodriguez, Matias, Altemose, Nicolas, Rhie, Arang, Core, Leighton J, Gerton, Jennifer L, Makalowski, Wojciech, Olson, Daniel, Rosen, Jeb, Smit, Arian F A, Straight, Aaron F, Vollger, Mitchell R, Wheeler, Travis J, Schatz, Michael C, Eichler, Evan E, Phillippy, Adam M, Timp, Winston, Miga, Karen H, O'Neill, Rachel J
Published in Science (American Association for the Advancement of Science) (01.04.2022)
Published in Science (American Association for the Advancement of Science) (01.04.2022)
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Journal Article
Ecological roles of dominant and rare prokaryotes in acid mine drainage revealed by metagenomics and metatranscriptomics
Hua, Zheng-Shuang, Han, Yu-Jiao, Chen, Lin-Xing, Liu, Jun, Hu, Min, Li, Sheng-Jin, Kuang, Jia-Liang, Chain, Patrick SG, Huang, Li-Nan, Shu, Wen-Sheng
Published in The ISME Journal (01.06.2015)
Published in The ISME Journal (01.06.2015)
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Journal Article
Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill
Mason, Olivia U, Hazen, Terry C, Borglin, Sharon, Chain, Patrick S G, Dubinsky, Eric A, Fortney, Julian L, Han, James, Holman, Hoi-Ying N, Hultman, Jenni, Lamendella, Regina, Mackelprang, Rachel, Malfatti, Stephanie, Tom, Lauren M, Tringe, Susannah G, Woyke, Tanja, Zhou, Jizhong, Rubin, Edward M, Jansson, Janet K
Published in The ISME Journal (01.09.2012)
Published in The ISME Journal (01.09.2012)
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Journal Article
Accurate read-based metagenome characterization using a hierarchical suite of unique signatures
Freitas, Tracey Allen K, Li, Po-E, Scholz, Matthew B, Chain, Patrick S G
Published in Nucleic acids research (26.05.2015)
Published in Nucleic acids research (26.05.2015)
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Journal Article
A novel metatranscriptomic approach to identify gene expression dynamics during extracellular electron transfer
Ishii, Shun’ichi, Suzuki, Shino, Norden-Krichmar, Trina M., Tenney, Aaron, Chain, Patrick S. G., Scholz, Matthew B., Nealson, Kenneth H., Bretschger, Orianna
Published in Nature communications (19.03.2013)
Published in Nature communications (19.03.2013)
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Journal Article
The Genome Sequence of the Obligately Chemolithoautotrophic, Facultatively Anaerobic Bacterium Thiobacillus denitrificans
BELLER, Harry R, CHAIN, Patrick S. G, LETAIN, Tracy E, CHAKICHERLA, Anu, LARIMER, Frank W, RICHARDSON, Paul M, COLEMAN, Matthew A, WOOD, Ann P, KELLY, Donovan P
Published in Journal of Bacteriology (01.02.2006)
Published in Journal of Bacteriology (01.02.2006)
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Journal Article
Single-cell and metagenomic analyses indicate a fermentative and saccharolytic lifestyle for members of the OP9 lineage
Dodsworth, Jeremy A., Blainey, Paul C., Murugapiran, Senthil K., Swingley, Wesley D., Ross, Christian A., Tringe, Susannah G., Chain, Patrick S. G., Scholz, Matthew B., Lo, Chien-Chi, Raymond, Jason, Quake, Stephen R., Hedlund, Brian P.
Published in Nature communications (2013)
Published in Nature communications (2013)
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Journal Article
Comparative genome analysis of Burkholderia phytofirmans PsJN reveals a wide spectrum of endophytic lifestyles based on interaction strategies with host plants
Mitter, Birgit, Petric, Alexandra, Shin, Maria W, Chain, Patrick S G, Hauberg-Lotte, Lena, Reinhold-Hurek, Barbara, Nowak, Jerzy, Sessitsch, Angela
Published in Frontiers in plant science (2013)
Published in Frontiers in plant science (2013)
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Journal Article
Complete Genome Sequence of Nitrosospira multiformis, an Ammonia-Oxidizing Bacterium from the Soil Environment
Norton, Jeanette M, Klotz, Martin G, Stein, Lisa Y, Arp, Daniel J, Bottomley, Peter J, Chain, Patrick S.G, Hauser, Loren J, Land, Miriam L, Larimer, Frank W, Shin, Maria W, Starkenburg, Shawn R
Published in Applied and Environmental Microbiology (01.06.2008)
Published in Applied and Environmental Microbiology (01.06.2008)
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Journal Article
The Coronavirus Standards Working Group’s roadmap for improved population testing
Mercer, Tim, Almond, Neil, Crone, Michael A., Chain, Patrick S. G., Deshpande, Alina, Eveleigh, Deepa, Freemont, Paul, Fuchs, Sebastien, Garlick, Russell, Huggett, Jim, Kammel, Martin, Li, Po-E, Milavec, Mojca, Marlowe, Elizabeth M., O’Sullivan, Denise M., Page, Mark, Pestano, Gary A., Suliman, Sara, Simen, Birgitte, Sninsky, John J., Sopchak, Lynne, Tato, Cristina M., Vallone, Peter M., Vandesompele, Jo, White, Thomas J., Zeichhardt, Heinz, Salit, Marc
Published in Nature biotechnology (01.11.2022)
Published in Nature biotechnology (01.11.2022)
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Journal Article
Capturing single cell genomes of active polysaccharide degraders: an unexpected contribution of Verrucomicrobia
Martinez-Garcia, Manuel, Brazel, David M, Swan, Brandon K, Arnosti, Carol, Chain, Patrick S G, Reitenga, Krista G, Xie, Gary, Poulton, Nicole J, Lluesma Gomez, Monica, Masland, Dashiell E D, Thompson, Brian, Bellows, Wendy K, Ziervogel, Kai, Lo, Chien-Chi, Ahmed, Sanaa, Gleasner, Cheryl D, Detter, Chris J, Stepanauskas, Ramunas
Published in PloS one (20.04.2012)
Published in PloS one (20.04.2012)
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Journal Article
The National Microbiome Data Collaborative: enabling microbiome science
Wood-Charlson, Elisha M., Anubhav, Auberry, Deanna, Blanco, Hannah, Borkum, Mark I., Corilo, Yuri E., Davenport, Karen W., Deshpande, Shweta, Devarakonda, Ranjeet, Drake, Meghan, Duncan, William D., Flynn, Mark C., Hays, David, Hu, Bin, Huntemann, Marcel, Li, Po-E, Lipton, Mary, Lo, Chien-Chi, Millard, David, Miller, Kayd, Piehowski, Paul D., Purvine, Samuel, Reddy, T.B.K., Shakya, Migun, Sundaramurthi, Jagadish Chandrabose, Vangay, Pajau, Wei, Yaxing, Wilson, Bruce E., Canon, Shane, Chain, Patrick S. G., Fagnan, Kjiersten, Martin, Stanton, McCue, Lee Ann, Mungall, Christopher J., Mouncey, Nigel J., Maxon, Mary E., Eloe-Fadrosh, Emiley A.
Published in Nature reviews. Microbiology (01.06.2020)
Published in Nature reviews. Microbiology (01.06.2020)
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