Not logged in A Prebiotic Diet Containing Galactooligosaccharides and Polydextrose Produces Dynamic and Reproducible Changes in the Gut Microbial Ecosystem in Male Rats Thompson, Robert S.; Bowers, Samuel J.; Vargas, Fernando; Hopkins, Shelby; Kelley, Tel; Gonzalez, Antonio; Lowry, Christopher A.; Dorrestein, Pieter C.; Vitaterna, Martha Hotz; Turek, Fred W.; Knight, Rob; Wright Jr, Kenneth P.; Fleshner, Monika Share Save
Enhancing untargeted metabolomics using metadata-based source annotation Gauglitz, Julia M.; West, Kiana A.; Bittremieux, Wout; Williams, Candace L.; Weldon, Kelly C.; Panitchpakdi, Morgan; Di Ottavio, Francesca; Aceves, Christine M.; Brown, Elizabeth; Sikora, Nicole C.; Jarmusch, Alan K.; Martino, Cameron; Tripathi, Anupriya; Meehan, Michael J.; Dorrestein, Kathleen; Shaffer, Justin P.; Coras, Roxana; Vargas, Fernando; Goldasich, Lindsay DeRight; Schwartz, Tara; Bryant, MacKenzie; Humphrey, Gregory; Johnson, Abigail J.; Spengler, Katharina; Belda-Ferre, Pedro; Diaz, Edgar; McDonald, Daniel; Zhu, Qiyun; Elijah, Emmanuel O.; Wang, Mingxun; Marotz, Clarisse; Sprecher, Kate E.; Vargas-Robles, Daniela; Withrow, Dana; Ackermann, Gail; Herrera, Lourdes; Bradford, Barry J.; Marques, Lucas Maciel Mauriz; Amaral, Juliano Geraldo; Silva, Rodrigo Moreira; Veras, Flavio Protasio; Cunha, Thiago Mattar; Oliveira, Rene Donizeti Ribeiro; Louzada-Junior, Paulo; Mills, Robert H.; Piotrowski, Paulina K.; Servetas, Stephanie L.; Da Silva, Sandra M.; Jones, Christina M.; Lin, Nancy J.; Lippa, Katrice A.; Jackson, Scott A.; Daouk, Rima Kaddurah; Galasko, Douglas; Dulai, Parambir S.; Kalashnikova, Tatyana I.; Wittenberg, Curt; Terkeltaub, Robert; Doty, Megan M.; Kim, Jae H.; Rhee, Kyung E.; Beauchamp-Walters, Julia; Wright, Jr Kenneth P.; Dominguez-Bello, Maria Gloria; Manary, Mark; Oliveira, Michelli F.; Boland, Brigid S.; Lopes, Norberto Peporine; Guma, Monica; Swafford, Austin D.; Dutton, Rachel J.; Knight, Rob; Dorrestein, Pieter C. Share Save
Paired microbiome and metabolome analyses associate bile acid changes with colorectal cancer progression Fu, Ting; Huan, Tao; Rahman, Gibraan; Zhi, Hui; Xu, Zhenjiang; Oh, Tae Gyu; Guo, Jian; Coulter, Sally; Tripathi, Anupriya; Martino, Cameron; Mccarville, Justin L.; Zhu, Qiyun; Cayabyab, Fritz; Low, Brian; He, Mingxiao; Xing, Shipei; Vargas, Fernando; Yu, Ruth T.; Atkins, Annette; Liddle, Christopher; Ayres, Janelle; Raffatellu, Manuela; Dorrestein, Pieter C.; Downes, Michael; Knight, Rob; Evans, Ronald M. Share Save
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Enhancing untargeted metabolomics using metadata-based source annotation Gauglitz, Julia M.; West, Kiana A.; Bittremieux, Wout; Williams, Candace L.; Weldon, Kelly C.; Panitchpakdi, Morgan; Di Ottavio, Francesca; Aceves, Christine M.; Brown, Elizabeth; Sikora, Nicole C.; Jarmusch, Alan K.; Martino, Cameron; Tripathi, Anupriya; Meehan, Michael J.; Dorrestein, Kathleen; Shaffer, Justin P.; Coras, Roxana; Vargas, Fernando; Goldasich, Lindsay DeRight; Schwartz, Tara; Bryant, MacKenzie; Humphrey, Gregory; Johnson, Abigail J.; Spengler, Katharina; Belda-Ferre, Pedro; Diaz, Edgar; McDonald, Daniel; Zhu, Qiyun; Elijah, Emmanuel O.; Wang, Mingxun; Marotz, Clarisse; Sprecher, Kate E.; Vargas-Robles, Daniela; Withrow, Dana; Ackermann, Gail; Herrera, Lourdes; Bradford, Barry J.; Marques, Lucas Maciel Mauriz; Amaral, Juliano Geraldo; Silva, Rodrigo Moreira; Veras, Flavio Protasio; Cunha, Thiago Mattar; Oliveira, Rene Donizeti Ribeiro; Louzada-Junior, Paulo; Mills, Robert H.; Piotrowski, Paulina K.; Servetas, Stephanie L.; Da Silva, Sandra M.; Jones, Christina M.; Lin, Nancy J.; Lippa, Katrice A.; Jackson, Scott A.; Daouk, Rima Kaddurah; Galasko, Douglas; Dulai, Parambir S.; Kalashnikova, Tatyana I.; Wittenberg, Curt; Terkeltaub, Robert; Doty, Megan M.; Kim, Jae H.; Rhee, Kyung E.; Beauchamp-Walters, Julia; Wright, Kenneth P., Jr.; Dominguez-Bello, Maria Gloria; Manary, Mark; Oliveira, Michelli F.; Boland, Brigid S.; Lopes, Norberto Peporine; Guma, Monica; Swafford, Austin D.; Dutton, Rachel J.; Knight, Rob; Dorrestein, Pieter C. Share Save
Multiomic Analyses of Nascent Preterm Infant Microbiomes Differentiation Suggest Opportunities for Targeted Intervention Orchanian, Stephanie B.; Gauglitz, Julia M.; Wandro, Stephen; Weldon, Kelly C.; Doty, Megan; Stillwell, Kristina; Hansen, Shalisa; Jiang, Lingjing; Vargas, Fernando; Rhee, Kyung E.; Lumeng, Julie C.; Dorrestein, Pieter C.; Knight, Rob; Kim, Jae H.; Song, Se Jin; Swafford, Austin D. Share Save
A Prebiotic Diet Alters the Fecal Microbiome and Improves Sleep in Response to Sleep Disruption in Rats Bowers, Samuel J.; Summa, Keith C.; Thompson, Robert S.; Gonzalez, Antonio; Vargas, Fernando; Olker, Christopher; Jiang, Peng; Lowry, Christopher A.; Dorrestein, Pieter C.; Knight, Rob; Wright, Kenneth P.; Fleshner, Monika; Turek, Fred W.; Vitaterna, Martha H. Share Save
An international analysis evaluating frontline bendamustine with rituximab in extranodal marginal zone lymphoma Alderuccio, Juan Pablo; Arcaini, Luca; Watkins, Marcus P.; Beaven, Anne W.; Shouse, Geoffrey; Epperla, Narendranath; Spina, Michele; Stefanovic, Alexandra; Sandoval-Sus, Jose; Torka, Pallawi; Alpert, Ash B.; Olszewski, Adam J.; Kim, Seo-Hyun; Hess, Brian; Gaballa, Sameh; Ayyappan, Sabarish; Castillo, Jorge J.; Argnani, Lisa; Voorhees, Timothy J.; Saba, Raya; Chowdhury, Sayan Mullick; Vargas, Fernando; Reis, Isildinha M.; Kwon, Deukwoo; Alexander, Jonathan S.; Zhao, Wei; Edwards, Dali; Martin, Peter; Cencini, Emanuele; Kamdar, Manali; Link, Brian K.; Logothetis, Constantine N.; Herrera, Alex F.; Friedberg, Jonathan W.; Kahl, Brad S.; Luminari, Stefano; Zinzani, Pier Luigi; Lossos, Izidore S. Share Save
The Host-Microbiome Response to Hyperbaric Oxygen Therapy in Ulcerative Colitis Patients Gonzalez, Carlos G.; Mills, Robert H.; Kordahi, Melissa C.; Carrillo-Terrazas, Marvic; Secaira-Morocho, Henry; Widjaja, Christella E.; Tsai, Matthew S.; Mittal, Yash; Yee, Brian A.; Vargas, Fernando; Weldon, Kelly; Gauglitz, Julia M.; Delaroque, Clara; Sauceda, Consuelo; Rossitto, Leigh-Ana; Ackermann, Gail; Humphrey, Gregory; Swafford, Austin D.; Siegel, Corey A.; Buckey, Jay C., Jr.; Raffals, Laura E.; Sadler, Charlotte; Lindholm, Peter; Fisch, Kathleen M.; Valaseck, Mark; Suriawinata, Arief; Yeo, Gene W.; Ghosh, Pradipta; Chang, John T.; Chu, Hiutung; Dorrestein, Pieter; Zhu, Qiyun; Chassaing, Benoit; Knight, Rob; Gonzalez, David J.; Dulai, Parambir S. Share Save
Ruminiclostridium 5, Parabacteroides distasonis, and bile acid profile are modulated by prebiotic diet and associate with facilitated sleep/clock realignment after chronic disruption of rhythms Thompson, Robert S.; Gaffney, Michelle; Hopkins, Shelby; Kelley, Tel; Gonzalez, Antonio; Bowers, Samuel J.; Vitaterna, Martha Hotz; Turek, Fred W.; Foxx, Christine L.; Lowry, Christopher A.; Vargas, Fernando; Dorrestein, Pieter C.; Wright, Kenneth P., Jr.; Knight, Rob; Fleshner, Monika Share Save
Ion identity molecular networking for mass spectrometry-based metabolomics in the GNPS environment Schmid, Robin; Petras, Daniel; Nothias, Louis-Felix; Wang, Mingxun; Aron, Allegra T.; Jagels, Annika; Tsugawa, Hiroshi; Rainer, Johannes; Garcia-Aloy, Mar; Duhrkop, Kai; Korf, Ansgar; Pluskal, Tomas; Kamenik, Zdenek; Jarmusch, Alan K.; Caraballo-Rodriguez, Andres Mauricio; Weldon, Kelly C.; Nothias-Esposito, Melissa; Aksenov, Alexander A.; Bauermeister, Anelize; Orio, Andrea Albarracin; Grundmann, Carlismari O.; Vargas, Fernando; Koester, Irina; Gauglitz, Julia M.; Gentry, Emily C.; Hovelmann, Yannick; Kalinina, Svetlana A.; Pendergraft, Matthew A.; Panitchpakdi, Morgan; Tehan, Richard; Le Gouellec, Audrey; Aleti, Gajender; Russo, Helena Mannochio; Arndt, Birgit; Hubner, Florian; Hayen, Heiko; Zhi, Hui; Raffatellu, Manuela; Prather, Kimberly A.; Aluwihare, Lihini, I; Bocker, Sebastian; McPhail, Kerry L.; Humpf, Hans-Ulrich; Karst, Uwe; Dorrestein, Pieter C. Share Save
Effects of Immunization With the Soil-Derived Bacterium Mycobacterium vaccae on Stress Coping Behaviors and Cognitive Performance in a Two Hit Stressor Model Foxx, Christine L.; Heinze, Jared D.; Gonzalez, Antonio; Vargas, Fernando; Baratta, Michael V.; Elsayed, Ahmed I.; Stewart, Jessica R.; Loupy, Kelsey M.; Arnold, Mathew R.; Flux, M. C.; Sago, Saydie A.; Siebler, Philip H.; Milton, Lauren N.; Lieb, Margaret W.; Hassell, James E.; Smith, David G.; Lee, Kyo A. K.; Appiah, Sandra A.; Schaefer, Evan J.; Panitchpakdi, Morgan; Sikora, Nicole C.; Weldon, Kelly C.; Stamper, Christopher E.; Schmidt, Dominic; Duggan, David A.; Mengesha, Yosan M.; Ogbaselassie, Mikale; Nguyen, Kadi T.; Gates, Chloe A.; Schnabel, K'loni; Tran, Linh; Jones, Joslynn D.; Vitaterna, Martha H.; Turek, Fred W.; Fleshner, Monika; Dorrestein, Pieter C.; Knight, Rob; Wright, Kenneth P.; Lowry, Christopher A. Share Save
Evaluating Organism-Wide Changes in the Metabolome and Microbiome following a Single Dose of Antibiotic Vrbanac, Alison; Patras, Kathryn A.; Jarmusch, Alan K.; Mills, Robert H.; Shing, Samuel R.; Quinn, Robert A.; Vargas, Fernando; Gonzalez, David J.; Dorrestein, Pieter C.; Knight, Rob; Nizet, Victor Share Save
Database-independent molecular formula annotation using Gibbs sampling through ZODIAC (vol 2, pg 629, 2020) Ludwig, Marcus; Nothias, Louis-Felix; Duhrkop, Kai; Koester, Irina; Fleischauer, Markus; Hoffmann, Martin A.; Petras, Daniel; Vargas, Fernando; Morsy, Mustafa; Aluwihare, Lihini; Dorrestein, Pieter C.; Bocker, Sebastian Share Save
Database-independent molecular formula annotation using Gibbs sampling through ZODIAC Ludwig, Marcus; Nothias, Louis-Felix; Duehrkop, Kai; Koester, Irina; Fleischauer, Markus; Hoffmann, Martin A.; Petras, Daniel; Vargas, Fernando; Morsy, Mustafa; Aluwihare, Lihini; Dorrestein, Pieter C.; Boecker, Sebastian Share Save
Feature-based molecular networking in the GNPS analysis environment Nothias, Louis-Felix; Petras, Daniel; Schmid, Robin; Duehrkop, Kai; Rainer, Johannes; Sarvepalli, Abinesh; Protsyuk, Ivan; Ernst, Madeleine; Tsugawa, Hiroshi; Fleischauer, Markus; Aicheler, Fabian; Aksenov, Alexander A.; Alka, Oliver; Allard, Pierre-Marie; Barsch, Aiko; Cachet, Xavier; Caraballo-Rodriguez, Andres Mauricio; Da Silva, Ricardo R.; Dang, Tam; Garg, Neha; Gauglitz, Julia M.; Gurevich, Alexey; Isaac, Giorgis; Jarmusch, Alan K.; Kamenik, Zdenek; Kang, Kyo Bin; Kessler, Nikolas; Koester, Irina; Korf, Ansgar; Le Gouellec, Audrey; Ludwig, Marcus; Martin H., Christian; McCall, Laura-Isobel; McSayles, Jonathan; Meyer, Sven W.; Mohimani, Hosein; Morsy, Mustafa; Moyne, Oriane; Neumann, Steffen; Neuweger, Heiko; Nguyen, Ngoc Hung; Nothias-Esposito, Melissa; Paolini, Julien; Phelan, Vanessa V.; Pluskal, Tomas; Quinn, Robert A.; Rogers, Simon; Shrestha, Bindesh; Tripathi, Anupriya; van der Hooft, Justin J. J.; Vargas, Fernando; Weldon, Kelly C.; Witting, Michael; Yang, Heejung; Zhang, Zheng; Zubeil, Florian; Kohlbacher, Oliver; Boecker, Sebastian; Alexandrov, Theodore; Bandeira, Nuno; Wang, Mingxun; Dorrestein, Pieter C. Share Save
ReDU: a framework to find and reanalyze public mass spectrometry data Jarmusch, Alan K.; Wang, Mingxun; Aceves, Christine M.; Advani, Rohit S.; Aguirre, Shaden; Aksenov, Alexander A.; Aleti, Gajender; Aron, Allegra T.; Bauermeister, Anelize; Bolleddu, Sanjana; Bouslimani, Amina; Rodriguez, Andres Mauricio Caraballo; Chaar, Rama; Coras, Roxana; Elijah, Emmanuel O.; Ernst, Madeleine; Gauglitz, Julia M.; Gentry, Emily C.; Husband, Makhai; Jarmusch, Scott A.; Jones, Kenneth L., II; Kamenik, Zdenek; Le Gouellec, Audrey; Lu, Aileen; Mccall, Laura-Isobel; McPhail, Kerry L.; Meehan, Michael J.; Melnik, Alexey, V; Menezes, Riya C.; Giraldo, Yessica Alejandra Montoya; Nguyen, Ngoc Hung; Nothias, Louis Felix; Nothias-Esposito, Melissa; Panitchpakdi, Morgan; Petras, Daniel; Quinn, Robert A.; Sikora, Nicole; van der Hooft, Justin J. J.; Vargas, Fernando; Vrbanac, Alison; Weldon, Kelly C.; Knight, Rob; Bandeira, Nuno; Dorrestein, Pieter C. Share Save
Paroxetine Administration Affects Microbiota and Bile Acid Levels in Mice Dethloff, Frederik; Vargas, Fernando; Elijah, Emmanuel; Quinn, Robert; Park, Dong Ik; Herzog, David P.; Mueller, Marianne B.; Gentry, Emily C.; Knight, Rob; Gonzalez, Antonio; Dorrestein, Pieter C.; Turck, Christoph W. Share Save
Reproducible molecular networking of untargeted mass spectrometry data using GNPS Aron, Allegra T.; Gentry, Emily C.; McPhail, Kerry L.; Nothias, Louis-Felix; Nothias-Esposito, Melissa; Bouslimani, Amina; Petras, Daniel; Gauglitz, Julia M.; Sikora, Nicole; Vargas, Fernando; van Der Hooft, Justin J. J.; Ernst, Madeleine; Bin Kang, Kyo; Aceves, Christine M.; Caraballo-Rodriguez, Andres Mauricio; Koester, Irina; Weldon, Kelly C.; Bertrand, Samuel; Roullier, Catherine; Sun, Kunyang; Tehan, Richard M.; Boya P, Cristopher A.; Christian, Martin H.; Gutierrez, Marcelino; Ulloa, Aldo Moreno; Mora, Javier Andres Tejeda; Mojica-Flores, Randy; Lakey-Beitia, Johant; Vasquez-Chaves, Victor; Zhang, Yilue; Calderon, Angela, I; Tayler, Nicole; Keyzers, Robert A.; Tugizimana, Fidele; Ndlovu, Nombuso; Aksenov, Alexander A.; Jarmusch, Alan K.; Schmid, Robin; Truman, Andrew W.; Bandeira, Nuno; Wang, Mingxun; Dorrestein, Pieter C. Share Save
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