Andrew D. Patterson, Ph.D.

Andrew D. Patterson, Ph.D.

  • John T. and Paige S. Smith Professorship
  • Professor of Molecular Toxicology
  • Professor of Biochemistry & Molecular Biology
322 Life Sciences Bldg
University Park, PA 16802

Areas of Expertise

  • Metabolomics
  • Microbiome
  • Drug Metabolism
  • Metabolism
  • Environmental Contaminants

Education

  • Research Fellow, National Cancer Institute (NCI), 2006-2011
  • Pharmacology Research Associate in Training Fellow, National Institute of General Medical Sciences (NIGMS), 2006-2009
  • PhD, Genetics, Graduate Partnerships Program, NCI and George Washington University, 2006
  • BS, Microbiology, Penn State University, 1999

Dr. Patterson is Professor of Molecular Toxicology at the Pennsylvania State University, University Park, PA and is the Scientific Director of Metabolomics. He and his students, postdocs, and collaborators focus on understanding the host-metabolite-microbiota communication network—specifically how the manipulation of gut microbiota by diet and/or xenobiotics impacts host metabolites (e.g., bile acids, short chain fatty acids), their metabolism, and how these co-metabolites interact with host nuclear/soluble receptors (e.g., farnesoid X receptor, aryl hydrocarbon receptor). The lab employs a variety of tools, including NMR- and mass spectrometry-based metabolomics, genomics, and conventional and gnotobiotic transgenic mice, to facilitate its study of these pathways and understand their impact on human health and disease. 

Publications

Individualized microbiotas dictate the impact of dietary fiber on colitis sensitivity
Microbiome, Bonazzi, Erica, Bretin, Alexis, Vigué, Lucile, Hao, Fuhua, Patterson, Andrew D., Gewirtz, Andrew T., Chassaing, Benoit, 2024

The underappreciated diversity of bile acid modifications.
Cell, Mohanty, I, Mannochio-Russo, H, Schweer, J, El Abiead, Y, Bittremieux, W, Xing, S, Schmid, R, Zuffa, S, Vasquez, F, Muti, V, Zemlin, J, Tovar-Herrera, O, Moraïs, S, Desai, D, Amin, S, Koo, I, Turck, C, Mizrahi, I, Kris-Etherton, P, Petersen, K, Fleming, J, Huan, T, Patterson, Andrew, Siegel, D, Hagey, L, Wang, M, Aron, A, Dorrestein, P, 2024

Immune cell-intrinsic Ah receptor facilitates the expression of antimicrobial REG3G in the small intestine
FASEB Journal, Chakraborty, Debopriya, Coslo, Denise M., Murray, Iain Alexander, Vijay, Anitha, Patterson, Andrew David, Perdew, Gary H., 2024

Reverse metabolomics for the discovery of chemical structures from humans
Nature, Gentry, Emily C., Collins, Stephanie L., Panitchpakdi, Morgan, Belda-Ferre, Pedro, Stewart, Allison K., Carrillo Terrazas, Marvic, Lu, Hsueh Han, Zuffa, Simone, Yan, Tingting, Avila-Pacheco, Julian, Plichta, Damian R., Aron, Allegra T., Wang, Mingxun, Jarmusch, Alan K., Hao, Fuhua, Syrkin-Nikolau, Mashette, Vlamakis, Hera, Ananthakrishnan, Ashwin N., Boland, Brigid S., Hemperly, Amy, Vande Casteele, Niels, Gonzalez, Frank J., Clish, Clary B., Xavier, Ramnik J., Chu, Hiutung, Baker, Erin S., Patterson, Andrew D., Knight, Rob, Siegel, Dionicio, Dorrestein, Pieter C., 2024

Bile salt hydrolase catalyses formation of amine-conjugated bile acids
Nature, Rimal, Bipin, Collins, Stephanie, Tanes, Ceylan, Granda, Megan, Koo, Imhoi, Rocha, E, Solanka, Sumeet, Granda, M, Hoque, Nushrat, Solanki, Sumeet, Hoque, Nushrat, Gentry, Emily, Yan, Tingting, Gentry, Emily, Bisanz, Jordan, Koo, Imhoi, Reilly, Erin, Krausz, Kristopher, Hao, Fuhua, Desai, Dhimant, Amin, Shantu, Paudel, Devendra, Rocha, Edson, Singh, Vishal, Coleman, James, Yan, Tingting, Kim, Min, Shah, Yatrik, Gonzalez, Frank, Bittinger, Kyle, Zackular, Joseph, Vanden Heuvel, John, Krausz, Kristopher, Patterson, A, Desai, Dhimant, Amin, Shantu, Coleman, James, Shah, Yatrik, Bisanz, Jordan, Gonzalez, Frank, Heuvel, John, Vanden Heuvel, John P., Wu, Gary, Zemel, Babette, Dorrestein, Pieter, Weinert, Emily E., Patterson, Andrew, 2024

microbeMASST: a taxonomically informed mass spectrometry search tool for microbial metabolomics data
Nature Microbiology, Zuffa, Simone, Schmid, Robin, Bauermeister, Anelize, Paulo, Paulo Wender, Caraballo-Rodriguez, Andres M., El Abiead, Yasin, Aron, Allegra T., Gentry, Emily C., Zemlin, Jasmine, Meehan, Michael J., Avalon, Nicole E., Cichewicz, Robert H., Buzun, Ekaterina, Terrazas, Marvic Carrillo, Hsu, Chia Yun, Oles, Renee, Ayala, Adriana Vasquez, Zhao, Jiaqi, Chu, Hiutung, Kuijpers, Mirte C.M., Jackrel, Sara L., Tugizimana, Fidele, Nephali, Lerato Pertunia, Dubery, Ian A., Madala, Ntakadzeni Edwin, Moreira, Eduarda Antunes, Costa-Lotufo, Leticia Veras, Lopes, Norberto Peporine, Rezende-Teixeira, Paula, Jimenez, Paula C., Rimal, Bipin, Patterson, Andrew D., Traxler, Matthew F., Pessotti, Rita de Cassia, Alvarado-Villalobos, Daniel, Tamayo-Castillo, Giselle, Chaverri, Priscila, Escudero-Leyva, Efrain, Quiros-Guerrero, Luis Manuel, Bory, Alexandre Jean, Joubert, Juliette, Rutz, Adriano, Wolfender, Jean Luc, Allard, Pierre Marie, Sichert, Andreas, Pontrelli, Sammy, Pullman, Benjamin S., Bandeira, Nuno, Gerwick, William H., Gindro, Katia, Massana-Codina, Josep, Wagner, Berenike C., Forchhammer, Karl, Petras, Daniel, Aiosa, Nicole, Garg, Neha, Liebeke, Manuel, Bourceau, Patric, Kang, Kyo Bin, Gadhavi, Henna, de Carvalho, Luiz Pedro Sorio, Silva dos Santos, Mariana, Pérez-Lorente, Alicia Isabel, Molina-Santiago, Carlos, Romero, Diego, Franke, Raimo, Brönstrup, Mark, Vera Ponce de León, Arturo, Pope, Phillip Byron, La Rosa, Sabina Leanti, La Barbera, Giorgia, Roager, Henrik M., Laursen, Martin Frederik, Hammerle, Fabian, Siewert, Bianka, Peintner, Ursula, Licona-Cassani, Cuauhtemoc, Rodriguez-Orduña, Lorena, Rampler, Evelyn, Hildebrand, Felina, Koellensperger, Gunda, Schoeny, Harald, Hohenwallner, Katharina, Panzenboeck, Lisa, Gregor, Rachel, O’Neill, Ellis Charles, Roxborough, Eve Tallulah, Odoi, Jane, Bale, Nicole J., Ding, Su, Sinninghe Damsté, Jaap S., Guan, Xue Li, Cui, Jerry J., Ju, Kou San, Silva, Denise Brentan, Silva, Fernanda Motta Ribeiro, da Silva, Gilvan Ferreira, Koolen, Hector H.F., Grundmann, Carlismari, Clement, Jason A., Mohimani, Hosein, Broders, Kirk, McPhail, Kerry L., Ober-Singleton, Sidnee E., Rath, Christopher M., McDonald, Daniel, Knight, Rob, Wang, Mingxun, Dorrestein, Pieter C., 2024

Magnetic field and ultrasound induced simultaneous wireless energy harvesting
Energy and Environmental Science, Karan, Sumanta Kumar, Hosur, Sujay, Kashani, Zeinab, Leng, Haoyang, Vijay, Anitha, Sriramdas, Rammohan, Wang, Kai, Poudel, Bed, Patterson, Andrew D., Kiani, Mehdi, Priya, Shashank, 2024

Sex Dimorphic Effects of Bile Acid Metabolism in Liver Cancer in Mice.
Cellular and molecular gastroenterology and hepatology, Golonka, R, San Yeoh, B, Saha, P, Tian, Y, Chiang JYL, None, Patterson, Andrew, Gewirtz, A, Joe, B, Vijay-Kumar, M, 2024

Human Intestinal Microbiome Determines Individualized Inflammatory Response to Dietary Emulsifier Carboxymethylcellulose Consumption
Cellular and Molecular Gastroenterology and Hepatology, Daniel, Noëmie, Wu, Gary D., Walters, William, Compher, Charlene, Ni, Josephine, Delaroque, Clara, Albenberg, Lindsey, Ley, Ruth E., Patterson, Andrew D., Lewis, James D., Gewirtz, Andrew T., Chassaing, Benoit, 2024

Bile salt hydrolase in non-enterotoxigenic Bacteroides potentiates colorectal cancer
Nature Communications, Sun, Lulu, Zhang, Yi, Cai, Jie, Rimal, Bipin, Rocha, Edson R., Coleman, James P., Zhang, Chenran, Nichols, Robert G., Luo, Yuhong, Kim, Bora, Chen, Yaozong, Krausz, Kristopher W., Harris, Curtis C., Patterson, Andrew D., Zhang, Zhipeng, Takahashi, Shogo, Gonzalez, Frank J., 2023

Induction of AHR Signaling in Response to the Indolimine Class of Microbial Stress Metabolites
Metabolites, Patel, Dhwani, Murray, Iain A., Dong, Fangcong, Annalora, Andrew J., Gowda, Krishne, Coslo, Denise M., Krzeminski, Jacek, Koo, Imhoi, Hao, Fuhua, Amin, Shantu G., Marcus, Craig B., Patterson, Andrew D., Perdew, Gary H., 2023

Accumulation of Linoleic Acid by Altered Peroxisome Proliferator-Activated Receptor-α Signaling Is Associated with Age-Dependent Hepatocarcinogenesis in Ppara Transgenic Mice
Metabolites, Zhu, Xiaoyang, Liu, Qing, Patterson, Andrew D., Sharma, Arun K., Amin, Shantu G., Cohen, Samuel M., Gonzalez, Frank J., Peters, Jeffrey M., 2023

Molecular networking identifies an AHR-modulating benzothiazole from white button mushrooms (Agaricus bisporus)
Journal of Functional Foods, Chen, Xiaoling, Patterson, Andrew D., Perdew, Gary H., Murray, Iain A., Kellogg, Joshua J., 2023

Complex chemical signals dictate Ah receptor activation through the gut-lung axis
FASEB Journal, Dong, Fangcong, Murray, Iain A., Annalora, Andrew, Coslo, Denise M., Desai, Dhimant, Gowda, Krishne, Yang, Jian, Wang, Dingbowen, Koo, Imhoi, Hao, Fuhua, Amin, Shantu G., Patterson, Andrew D., Marcus, Craig, Perdew, Gary H., 2023

Profiling the human intestinal environment under physiological conditions
Nature, Shalon, Dari, Culver, Rebecca Neal, Grembi, Jessica A., Folz, Jacob, Treit, Peter V., Shi, Handuo, Rosenberger, Florian A., Dethlefsen, Les, Meng, Xiandong, Yaffe, Eitan, Aranda-Díaz, Andrés, Geyer, Philipp E., Mueller-Reif, Johannes B., Spencer, Sean, Patterson, Andrew D., Triadafilopoulos, George, Holmes, Susan P., Mann, Matthias, Fiehn, Oliver, Relman, David A., Huang, Kerwyn Casey, 2023

Nitric oxide regulates metabolism in murine stress erythroid progenitors to promote recovery during inflammatory anemia.
bioRxiv : the preprint server for biology, Ruan, B, Chen, Y, Trimidal, S, Koo, I, Qian, F, Cai, J, Mcguigan, J, Hall, M, Patterson, Andrew, Prabhu, K, Paulson, R, 2023

The Ah Receptor from Toxicity to Therapeutics: Report from the 5th AHR Meeting at Penn State University, USA, June 2022
International Journal of Molecular Sciences, Perdew, Gary H., Esser, Charlotte, Snyder, Megan, Sherr, David H., van den Bogaard, Ellen H., McGovern, Karen, Fernández-Salguero, Pedro M., Coumoul, Xavier, Patterson, Andrew D., 2023

Aryl hydrocarbon receptor activation affects nitrergic neuronal survival and delays intestinal motility in mice
Toxicological Sciences, Vijay, A, Boyle, N, Kumar, S, Perdew, Gary H., Srinivasan, S, Patterson, Andrew, 2023

Aryl Hydrocarbon Receptor Activation Coordinates Mouse Small Intestinal Epithelial Cell Programming
Laboratory Investigation, Zhou, Xiaoliang, Chakraborty, Debopriya, Murray, Iain A., Coslo, Denise, Kehs, Zoe, Vijay, Anitha, Ton, Carolyn, Desai, Dhimant, Amin, Shantu G., Patterson, Andrew D., Perdew, Gary H., 2023

Growth Hormone Alters Circulating Levels of Glycine and Hydroxyproline in Mice
Metabolites, Young, Jonathan A., Duran-Ortiz, Silvana, Bell, Stephen, Funk, Kevin, Tian, Yuan, Liu, Qing, Patterson, Andrew D., List, Edward O., Berryman, Darlene E., Kopchick, John J., 2023

Contribution of Circulating Host and Microbial Tryptophan Metabolites Toward Ah Receptor Activation
International Journal of Tryptophan Research, Morgan, Ethan W., Dong, Fangcong, Annalora, Andrew J., Murray, Iain A., Wolfe, Trenton, Erickson, Reece, Gowda, Krishne, Amin, Shantu G., Petersen, Kristina S., Kris-Etherton, Penny M., Marcus, Craig B., Walk, Seth T., Patterson, Andrew D., Perdew, Gary H., 2023

Refined fiber inulin promotes inflammation-associated colon tumorigenesis by modulating microbial succinate production
Cancer Reports, Tian, Sangshan, Paudel, Devendra, Hao, Fuhua, Neupane, Rabin, Castro, Rita, Patterson, Andrew D., Tiwari, Amit K., Prabhu, K. Sandeep, Singh, Vishal, 2023

Urine-based Detection of Congenital Portosystemic Shunt in C57BL/6 Mice
Function, Yeoh, Beng San, Golonka, Rachel M., Saha, Piu, Kandalgaonkar, Mrunmayee R., Tian, Yuan, Osman, Islam, Patterson, Andrew D., Gewirtz, Andrew T., Joe, Bina, Vijay-Kumar, Matam, 2023

Endogenous Tryptophan-Derived Ah Receptor Ligands are Dissociated from CYP1A1/1B1-Dependent Negative-Feedback
International Journal of Tryptophan Research, Dong, Fangcong, Annalora, Andrew J., Murray, Iain A., Tian, Yuan, Marcus, Craig B., Patterson, Andrew D., Perdew, Gary H., 2023

Loss of selenoprotein W in murine macrophages alters the hierarchy of selenoprotein expression, redox tone, and mitochondrial functions during inflammation
Redox Biology, Misra, Sougat, Lee, Tai-Jung, Hall, Molly, Sebastian, Aswathy, McGuigan, John, Liao, Chang, Koo, Imhoi, Patterson, A, Rossi, Randall, Hall, Molly, Albert, Istvan, others, None, Prabhu, K, 2023

Changes in fecal lipidome after treatment with ivacaftor without changes in microbiome or bile acids
Journal of Cystic Fibrosis, Bass, Rosara, Tanes, Ceylan, Bittinger, Kyle, Li, Yun, Lee, Hongzhe, Friedman, Elliot S., Koo, Imhoi, Patterson, Andrew David, Liu, Qing, Wu, Gary D., Stallings, Virginia A., 2023

Comparative urine metabolomics of mice treated with non-toxic and toxic oral doses of (−)-epigallocatechin-3-gallate
Food and Function, Hwang, Soomee, Koo, Imhoi, Patterson, Andrew D., Lambert, Joshua D., 2023

Psyllium Fiber Protects Against Colitis Via Activation of Bile Acid Sensor Farnesoid X Receptor
Cellular and Molecular Gastroenterology and Hepatology, Bretin, A, Zou, J, San Yeoh, B, Ngo, V, Winer, S, Winer, D, Reddivari, L, Pellizzon, M, Walters, W, Patterson, Andrew, Ley, R, Chassaing, B, Kumar, Matam Vijay, Vijay-Kumar, M, Gewirtz, A, 2023

A microbiome-dependent gut–brain pathway regulates motivation for exercise
Nature, Dohnalová, Lenka, Lundgren, Patrick, Carty, Jamie R.E., Goldstein, Nitsan, Wenski, Sebastian L., Nanudorn, Pakjira, Thiengmag, Sirinthra, Huang, Kuei Pin, Litichevskiy, Lev, Descamps, Hélène C., Chellappa, Karthikeyani, Glassman, Ana, Kessler, Susanne, Kim, Jihee, Cox, Timothy O., Dmitrieva-Posocco, Oxana, Wong, Andrea C., Allman, Erik L., Ghosh, Soumita, Sharma, Nitika, Sengupta, Kasturi, Cornes, Belinda, Dean, Nitai, Churchill, Gary A., Khurana, Tejvir S., Sellmyer, Mark A., FitzGerald, Garret A., Patterson, Andrew D., Baur, Joseph A., Alhadeff, Amber L., Helfrich, Eric J.N., Levy, Maayan, Betley, J. Nicholas, Thaiss, Christoph A., 2022

Genetic differences in nicotine sensitivity and metabolism in C57BL/6J and NOD/ShiLtJ mouse strains
Neuropharmacology, Seemiller, L, Goldberg, L, Smith, P, Dennis, J, Patterson, A, Gould, Thomas J., 2022

Defective humoral immunity disrupts bile acid homeostasis which promotes inflammatory disease of the small bowel
Nature Communications, Mohammed, Ahmed Dawood, Mohammed, Zahraa, Roland, Mary M., Chatzistamou, Ioulia, Jolly, Amy, Schoettmer, Lillian M., Arroyo, Mireya, Kakar, Khadija, Tian, Yuan, Patterson, Andrew, Nagarkatti, Mitzi, Nagarkatti, Prakash, Kubinak, Jason L., 2022

The unfolded protein response gene Ire1α is required for tissue renewal and normal differentiation in the mouse tongue and esophagus
Developmental Biology, Chalmers, F, Mogre, S, Rimal, B, Son, J, Patterson, Andrew D., Stairs, Douglas B., Glick, Adam, 2022

Glycine-β-muricholic acid antagonizes the intestinal farnesoid X receptor–ceramide axis and ameliorates NASH in mice
Hepatology Communications, Jiang, Jie, Ma, Yuandi, Liu, Yameng, Lu, Dasheng, Gao, Xiaoxia, Krausz, Kristopher W., Desai, Dhimant, Amin, Shantu G., Patterson, Andrew D., Gonzalez, Frank J., Xie, Cen, 2022

Interaction of sodium acetate supplementation and dietary fiber level on feeding behavior, digestibility, milk synthesis, and plasma metabolites
Journal of Dairy Science, Matamoros, C, Hao, F, Tian, Y., Patterson, A. D., Harvatine, K. J., 2022

AHR is a master regulator of diverse pathways in endogenous metabolism
Scientific Reports, Granados, J, Falah, K, Koo, Imhoi, Morgan, E, Perdew, Gary H., Patterson, A, Jamshidi, N, Nigam, S, 2022

Bile acid conjugation deficiency causes hypercholanemia, hyperphagia, islet dysfunction, and gut dysbiosis in mice
Hepatology Communications, Alrehaili, Bandar D., Lee, Mikang, Takahashi, Shogo, Novak, Robert, Rimal, Bipin, Boehme, Shannon, Trammell, Samuel A.J., Grevengoed, Trisha J., Kumar, Devendra, Alnouti, Yazen, Chiti, Katya, Wang, Xinwen, Patterson, Andrew D., Chiang, John Y.L., Gonzalez, Frank J., Lee, Yoon Kwang, 2022

Early Life Polychlorinated Biphenyl 126 Exposure Disrupts Gut Microbiota and Metabolic Homeostasis in Mice Fed with High-Fat Diet in Adulthood
Metabolites, Tian, Yuan, Rimal, Bipin, Gui, Wei, Koo, Imhoi, Smith, Philip B., Yokoyama, Shigetoshi, Patterson, Andrew D., 2022

Bile acid metabolism and signaling, the microbiota, and metabolic disease
Pharmacology and Therapeutics, Part A: Chemotherapy, Toxicology and, Cai, Jingwei, Rimal, Bipin, Jiang, Changtao, Chiang, John Y.L., Patterson, Andrew D., 2022

Early Life Short-Term Exposure to Polychlorinated Biphenyl 126 in Mice Leads to Metabolic Dysfunction and Microbiota Changes in Adulthood
International Journal of Molecular Sciences, Tian, Yuan, Rimal, B, Gui, W, Koo, Imhoi, Yokoyama, Shigetoshi, Perdew, Gary H., Patterson, A, 2022

Multi-Omics Strategies for Investigating the Microbiome in Toxicology Research
Toxicological Sciences, Morgan, E, Perdew, Gary H., Patterson, A, 2022

Randomized Controlled-Feeding Study of Dietary Emulsifier Carboxymethylcellulose Reveals Detrimental Impacts on the Gut Microbiota and Metabolome
Gastroenterology, Chassaing, Benoit, Compher, Charlene, Bonhomme, Brittaney, Liu, Qing, Tian, Yuan, Walters, William, Nessel, Lisa, Delaroque, Clara, Hao, Fuhua, Gershuni, Victoria, Chau, Lillian, Ni, Josephine, Bewtra, Meenakshi, Albenberg, Lindsey, Bretin, Alexis, McKeever, Liam, Ley, Ruth E., Patterson, Andrew D., Wu, Gary D., Gewirtz, Andrew T., Lewis, James D., 2022

Metabolomic profiling of stool of two-year old children from the INSIGHT study reveals links between butyrate and BMI
Pediatric obesity, Nandy, D, Craig SJC, None, Cai, J, Tian, Y, Paul, I, Savage, J, Marini, M, Hohman, E, Reimherr, M, Patterson, Andrew, Makova, K, Chiaromonte, F, 2022

The role of mouse and human peroxisome proliferator-activated receptor-α in modulating the hepatic effects of perfluorooctane sulfonate in mice
Toxicology, Su, S, Billy, Laura, Chang, Sue, Gonzalez, Frank, Patterson, Andrew D., Peters, Jeffrey, 2022

Diet standardization reduces intra-individual microbiome variation
Gut Microbes, Delaroque, Clara, Wu, Gary D., Compher, Charlene, Ni, Josephine, Albenberg, Lindsey, Liu, Qing, Tian, Yuan, Patterson, Andrew D., Lewis, James D., Gewirtz, Andrew T., Chassaing, Benoit, 2022

Bile acids and the gut microbiota: metabolic interactions and impacts on disease
Nature Reviews Microbiology, Collins, S, Stine, Jonathan, Bisanz, Jordan E., Okafor, C. Denise, Okafor, D, Patterson, Andrew, 2022

Reconstitution of the host holobiont in germ-free born male rats acutely increases bone growth and affects marrow cellular content
Physiological Genomics, Czernik, Piotr J., Golonka, Rachel M., Chakraborty, Saroj, Yeoh, Beng San, Abokor, Ahmed A., Saha, Piu, Yeo, Ji Youn, Mell, Blair, Cheng, Xi, Baroi, Sudipta, Tian, Yuan, Patterson, Andrew D., Joe, Bina, Vijay-Kumar, Matam, Lecka-Czernik, Beata, 2021

Role of bile acids and gut bacteria in healthy ageing of centenarians
Nature, Rimal, Bipin, Patterson, Andrew D., 2021

The east asian gut microbiome is distinct from colocalized white subjects and connected to metabolic health
eLife, Ang, Q, Alba, D, Upadhyay, V, Bisanz, Jordan E., Cai, J, Lee, H, Barajas, E, Wei, G, Noecker, C, Patterson, Andrew D., Koliwad, S, Turnbaugh, P, 2021

Exercise Training Reverses Gut Dysbiosis in Patients With Biopsy-Proven Nonalcoholic Steatohepatitis: A Proof of Concept Study
Clinical Gastroenterology and Hepatology, Hughes, Alexa, Dahmus, Jessica, Rivas, Gloriany, Hummer, Breianna, Chen See, Jeremy R., Wright, Justin R., Lamendella, Regina, Schmitz, Kathryn H., Sciamanna, Christopher, Ruffin, Mack, Patterson, Andrew D., Loomba, Rohit, Stine, Jonathan G., 2021

Comparison of the effects of short-term feeding of sodium acetate and sodium bicarbonate on milk fat production
Journal of Dairy Science, Matamoros, C, Cai, J, Patterson, A, Harvatine, Kevin, 2021

Caloric restriction disrupts the microbiota and colonization resistance
Nature, von Schwartzenberg, R, Bisanz, Jordan, Lyalina, S, Spanogiannopoulos, P, Ang, Q, Cai, J, Dickmann, S, Friedrich, M, Liu, S, Collins, S, Ingebrigtsen, D, Miller, S, Turnbaugh, J, Patterson, Andrew D., Pollard, K, Mai, K, Spranger, J, Turnbaugh, P, 2021

The aryl hydrocarbon receptor activates ceramide biosynthesis in mice contributing to hepatic lipogenesis
Toxicology, Liu, Q, Zhang, L, Allman, E, Hubbard, T, Murray, Iain A., Hao, F, Tian, Yuan, Gui, W, Nichols, R, Smith, Philip B., Anitha, M, Perdew, Gary, Patterson, Andrew D., 2021

The Pretreatment Gut Microbiome Is Associated With Lack of Response to Methotrexate in New-Onset Rheumatoid Arthritis
Arthritis and Rheumatology, Artacho, Alejandro, Isaac, Sandrine, Nayak, Renuka, Flor-Duro, Alejandra, Alexander, Margaret, Koo, Imhoi, Manasson, Julia, Smith, Philip B., Rosenthal, Pamela, Homsi, Yamen, Gulko, Percio, Pons, Javier, Puchades-Carrasco, Leonor, Izmirly, Peter, Patterson, Andrew, Abramson, Steven B., Pineda-Lucena, Antonio, Turnbaugh, Peter J., Ubeda, Carles, Scher, Jose U., 2021

Methotrexate impacts conserved pathways in diverse human gut bacteria leading to decreased host immune activation
Cell Host and Microbe, Nayak, Renuka R., Alexander, Margaret, Deshpande, Ishani, Stapleton-Gray, Kye, Rimal, Bipin, Patterson, Andrew D., Ubeda, Carles, Scher, Jose U., Turnbaugh, Peter J., 2021

Secondary bile acid ursodeoxycholic acid alters weight, the gut microbiota, and the bile acid pool in conventional mice
PLoS One, Winston, Jenessa A., Rivera, Alissa, Cai, Jingwei, Patterson, Andrew D., Theriot, Casey M., 2021

Quantitative analysis of bile acid with UHPLC-MS/MS, Tian, Yuan, Cai, Jingwei, Allman, Erik L., Smith, Philip B., Patterson, Andrew D., 2021

Current Challenges and Recent Developments in Mass Spectrometry-Based Metabolomics
Annual Review of Analytical Chemistry, Collins, Stephanie, Koo, Imhoi, Peters, Jeffrey, Smith, Philip B., Patterson, Andrew D., 2021

Sample preparation and data analysis for NMR-based metabolomics
Translational Bioinformatics for Therapeutic Development, Mal, T., Tian, Yuan, Patterson, Andrew D., 2021

Impaired intestinal akkermansia muciniphila and aryl hydrocarbon receptor ligands contribute to nonalcoholic fatty liver disease in mice
mSystems, Shi, Zunji, Lei, Hehua, Chen, Gui, Yuan, Peihong, Cao, Zheng, Ser, Hooi Leng, Zhu, Xuehang, Wu, Fang, Liu, Caixiang, Dong, Manyuan, Song, Yuchen, Guo, Yangyang, Chen, Chuan, Hu, Kexin, Zhu, Yifan, Zeng, Xin An, Zhou, Jinlin, Lu, Yujing, Patterson, Andrew D., Zhang, Limin, 2021

Metabolomic profiling of stool of two-year old children from the INSIGHT study reveals links between butyrate and child weight outcomes
Pediatric obesity, Nandy, Debmalya, Craig, Sarah J.C., Cai, Jingwei, Tian, Yuan, Paul, Ian, Savage, Jennifer, Williams, Jennifer Savage, Marini, Michelle, Hohman, Emily, Reimherr, Matthew Logan, Patterson, Andrew David, Makova, Kateryna Dmytrivna, Chiaromonte, Francesca, 2021

Selenium-dependent metabolic reprogramming during inflammation and resolution
Journal of Biological Chemistry, Korwar, A, Hossain, A, Lee, T, Shay, Ashley, Basrur, V, Conlon, K, Smith, Philip B., Carlson, B, Salis, Howard M., Patterson, Andrew D., Prabhu, K. Sandeep, 2021

A thermogenic fat-epithelium cell axis regulates intestinal disease tolerance
Proceedings of the National Academy of Sciences of the United States of America, Man, K, Bowman, C, Braverman, K, Escalante, V, Tian, Y, Bisanz, Jordan, Ganeshan, K, Wang, B, Patterson, Andrew, Bayrer, J, Turnbaugh, P, Chawla, A, 2020

Intestinal microbiota-derived tryptophan metabolites are predictive of Ah receptor activity
Gut Microbes, Dong, Fangcong, Hao, Fuhua, Murray, Iain A., Smith, Philip B., Koo, Imhoi, Tindall, Alyssa, Kris-Etherton, Penny, Gowda, Krishne, Amin, Shantu G., Patterson, Andrew D., Perdew, Gary, 2020

How gut microbiome interactions affect nutritional traits of Drosophila melanogaster
Journal of Experimental Biology, McMullen, John G., Peters-Schulze, Grace, Cai, Jingwei, Patterson, Andrew D., Douglas, Angela E., 2020

Exercise Training Reverses Gut Dysbiosis in Patients With Biopsy-Proven Nonalcoholic Steatohepatitis: A Proof of Concept Study.
Clinical gastroenterology and hepatology : the official clinical practice journal of the American Gastroenterological Association, Hughes, A, Dahmus, J, Rivas, G, Hummer, B, Chen See, J, Wright, J, Lamendella, R, Schmitz, K, Sciamanna, C, Ruffin, M, Patterson, Andrew, Loomba, R, Stine, J, 2020

Mdm2-dependent rewiring of metabolomic and lipidomic profiles in dedifferentiated liposarcoma models
Cancers, Patt, Andrew, Demoret, Bryce, Stets, Colin, Bill, Kate Lynn, Smith, Philip, Vijay, Anitha, Patterson, Andrew, Hays, John, Hoang, Mindy, Chen, James L., Mathé, Ewy A., 2020

Lipocalin 2 deficiency-induced gut microbiota dysbiosis evokes metabolic syndrome in aged mice
Physiological Genomics, Singh, Vishal, Galla, Sarah, Golonka, Rachel M., Patterson, Andrew D., Chassaing, Benoit, Joe, Bina, Vijay-Kumar, Matam, 2020

Metabolic profiling reveals aggravated non-alcoholic steatohepatitis in high-fat high-cholesterol diet-fed apolipoprotein e-deficient mice lacking ron receptor signaling
Metabolites, Allen, Joselyn N., Dey, Adwitia, Cai, Jingwei, Zhang, Jingtao, Tian, Yuan, Kennett, Mary, Ma, Yanling, Liang, T. Jake, Patterson, Andrew D., Hankey-Giblin, Pamela A., 2020

The microbiome modulating activity of bile acids
Gut Microbes, Tian, Yuan, Gui, Wei, Koo, Imhoi, Smith, Philip B., Allman, Erik L., Nichols, Robert G., Rimal, Bipin, Cai, Jingwei, Liu, Qing, Patterson, Andrew D., 2020

Vancomycin prevents fermentable fiber-induced liver cancer in mice with dysbiotic gut microbiota
Gut Microbes, Singh, Vishal, Yeoh, Beng San, Abokor, Ahmed, Golonka, Rachel, Tian, Yuan, Patterson, Andrew D., Joe, Bina, Heikenwalder, Mathias, Vijay-Kumar, Matam, 2020

Ketogenic Diets Alter the Gut Microbiome Resulting in Decreased Intestinal Th17 Cells
Cell, Ang, Qi Yan, Alexander, Margaret, Newman, John C., Tian, Yuan, Cai, Jingwei, Upadhyay, Vaibhav, Turnbaugh, Jessie A., Verdin, Eric, Hall, Kevin D., Leibel, Rudolph L., Ravussin, Eric, Rosenbaum, Michael, Patterson, Andrew D., Turnbaugh, Peter J., 2020

Ursodeoxycholic acid (udca) mitigates the host inflammatory response during clostridioides difficile infection by altering gut bile acids
Infection and Immunity, Winston, Jenessa A., Rivera, Alissa J., Cai, Jingwei, Thanissery, Rajani, Montgomery, Stephanie A., Patterson, Andrew D., Theriot, Casey M., 2020

Nonalcoholic steatohepatitis Fitness Intervention in Thrombosis (NASHFit): Study protocol for a randomized controlled trial of a supervised aerobic exercise program to reduce elevated clotting risk in patients with NASH
Contemporary Clinical Trials Communications, Stine, Jonathan G., Schreibman, Ian, Navabi, Seyedehsan, Kang, Mitchell, Dahmus, Jessica, Soriano, Christopher, Rivas, Gloriany, Hummer, Breianna, Beyer, Megan, Tressler, Heather, Kimball, Scot R., Patterson, Andrew D., Schmitz, Kathryn, Sciamanna, Christopher, 2020

Bacterial colonization reprograms the neonatal gut metabolome
Nature Microbiology, Bittinger, Kyle, Zhao, Chunyu, Li, Yun, Ford, Eileen, Friedman, Elliot S., Ni, Josephine, Kulkarni, Chiraag V., Cai, Jingwei, Tian, Yuan, Liu, Qing, Patterson, Andrew D., Sarkar, Debolina, Chan, Siu H.J., Maranas, Costas, Saha-Shah, Anumita, Lund, Peder, Garcia, Benjamin A., Mattei, Lisa M., Gerber, Jeffrey S., Elovitz, Michal A., Kelly, Andrea, DeRusso, Patricia, Kim, Dorothy, Hofstaedter, Casey E., Goulian, Mark, Li, Hongzhe, Bushman, Frederic D., Zemel, Babette S., Wu, Gary D., 2020

Microbial Metabolite Signaling Is Required for Systemic Iron Homeostasis
Cell Metabolism, Das, Nupur K., Schwartz, Andrew J., Barthel, Gabrielle, Inohara, Naohiro, Liu, Qing, Sankar, Amanda, Hill, David R., Ma, Xiaoya, Lamberg, Olivia, Schnizlein, Matthew K., Arqués, Juan L., Spence, Jason R., Nunez, Gabriel, Patterson, Andrew D., Sun, Duxin, Young, Vincent B., Shah, Yatrik M., 2020

Roux-en-Y Gastric Bypass Surgery Has Early Differential Effects on Bile Acids and the Levels of Complement Component 3 and Acylation-Stimulating Protein
Obesity Surgery, Noel, Olivier F., Chu, Xin, Patterson, Andrew D., Edwards, Michael A., Still, Christopher D., Gerhard, Glenn S., 2020

Perfluorooctane sulfonate alters gut microbiota-host metabolic homeostasis in mice
Toxicology, Zhang, Limin, Rimal, Bipin, Nichols, Robert, Tian, Yuan, Smith, Philip B., Hatzakis, Emmanuel, Chang, Shu-Ching, Butenhoff, John, Peters, Jeffrey, Patterson, Andrew D., 2020

Impact of facultative bacteria on the metabolic function of an obligate insect-bacterial symbiosis
mBio, Blow, Frances, Ankrah, Nana Y.D., Clark, Noah, Koo, Imhoi, Allman, Erik L., Liu, Qing, Anitha, Mallappa, Patterson, Andrew D., Douglas, Angela E., 2020

Metabolic impact of persistent organic pollutants on gut microbiota
Gut Microbes, Tian, Yuan, Gui, Wei, Rimal, Bipin, Koo, Imhoi, Smith, Philip B., Nichols, Robert G., Cai, Jingwei, Liu, Qing, Patterson, Andrew D., 2020

The gut microbiome: an orchestrator of xenobiotic metabolism
Acta Pharmaceutica Sinica B, Collins, Stephanie L., Patterson, Andrew D., 2020

Metatranscriptomic analysis of the mouse gut microbiome response to the persistent organic pollutant 2,3,7,8-tetrachlorodibenzofuran
Metabolites, Nichols, Renea, Zhang, Jian, Cai, Jingjing, Murray, Iain A., Koo, Imhoi, Smith, Philip B., Perdew, Gary H., Patterson, Andrew D., 2019

The Human Transient Receptor Potential Melastatin 2 Ion Channel Modulates ROS Through Nrf2
Scientific Reports, Bao, Lei, Festa, Fernanda, Freet, Christopher S., Lee, John P., Hirschler-Laszkiewicz, Iwona M., Chen, Shu jen, Keefer, Kerry A., Wang, Hong Gang, Patterson, Andrew D., Cheung, Joseph Y., Miller, Barbara A., 2019

Specialist and generalist fungal parasites induce distinct biochemical changes in the mandible muscles of their host
International Journal of Molecular Sciences, Zheng, Shanshan, Loreto, Raquel, Smith, Philip, Patterson, Andrew, Hughes, David, Wang, Liande, 2019

Nutrient Sensing in CD11c Cells Alters the Gut Microbiota to Regulate Food Intake and Body Mass
Cell Metabolism, Chagwedera, D, Ang, Q, Bisanz, Jordan, Leong, Y, Ganeshan, K, Cai, J, Patterson, Andrew D., Turnbaugh, P, Chawla, A, 2019

Evaluating the structural complexity of isomeric bile acids with ion mobility spectrometry
Fresenius Zeitschrift fur Analytische Chemie, Zheng, Xueyun, Smith, Francesca B., Aly, Noor A., Cai, Jingwei, Smith, Richard D., Patterson, Andrew D., Baker, Erin S., 2019

A review of analytical platforms for accurate bile acid measurement
Fresenius Zeitschrift fur Analytische Chemie, Dutta, Mainak, Cai, Jingwei, Gui, Wei, Patterson, Andrew D., 2019

A Quantitative HILIC-MS/MS Assay of the Metabolic Response of Huh-7 Cells Exposed to 2,3,7,8-Tetrachlorodibenzo-p-Dioxin.
Metabolites, Liu, Q, Cai, Jingjing, Nichols, Renea, Tian, Y, Zhang, Jian, Smith, Philip, Wang, Yanling, Yan, C, Patterson, Andrew, 2019

Microbiota Metabolism Promotes Synthesis of the Human Ah Receptor Agonist 2,8-Dihydroxyquinoline
Journal of Proteome Research, Hubbard, T, Liu, Q, Murray, Iain A., Dong, F, Miller, 3rd, C, Miller, Charles, Smith, Philip B., Gowda, Krishne, Lin, Jyh Ming, Amin, Shantu, Patterson, Andrew D., Perdew, Gary H., 2019

Berberine directly affects the gut microbiota to promote intestinal farnesoid X receptor activation
Drug Metabolism and Disposition, Tian, Yuan, Cai, Jingwei, Gui, Wei, Nichols, Robert G., Koo, Imhoi, Zhang, Jingtao, Anitha, Mallappa, Patterson, Andrew D., 2019

Microbiota fermentation-NLRP3 axis shapes the impact of dietary fibres on intestinal inflammation
Gut, Singh, Vishal, Yeoh, Beng San, Walker, Rachel, Xiao, Xia, Saha, Piu, Golonka, Rachel, Cai, Jingwei, Bretin, Alexis, Bretin ACA, None, Cheng, Xi, Liu, Qing, Flythe, Michael, Chassaing, Benoit, Shearer, Gregory C., Patterson, Andrew D., Gewirtz, Andrew, Vijay-Kumar, Matam, 2019

Metabolomic Approaches Reveal the Role of CAR in Energy Metabolism
Journal of Proteome Research, Chen, Fengming, Coslo, Denise M., Chen, Tao, Zhang, Limin, Tian, Yuan, Smith, Philip B., Patterson, Andrew D., Omiecinski, Curtis J., 2019

Retinoic acid mediated clearance of Citrobacter rodentium in vitamin A deficient mice requires CD11b+ and T cells
Frontiers in Immunology, Snyder, Lindsay M., McDaniel, Kaitlin L., Tian, Yuan, Wei, Cheng Hsin, Kennett, Mary J., Patterson, Andrew D., Catharine Ross, A., Cantorna, Margherita T., 2019

Vitamin D Regulates the Microbiota to Control the Numbers of RORγt/FoxP3+ Regulatory T Cells in the Colon
Frontiers in Immunology, Cantorna, Margherita T., Lin, Yang Ding, Arora, Juhi, Bora, Stephanie, Tian, Yuan, Nichols, Robert G., Patterson, Andrew D., 2019

Gdf15 regulates murine stress erythroid progenitor proliferation and the development of the stress erythropoiesis niche
Blood advances, Hao, Siyang, Xiang, Jie, Wu, Dai-Chen, Fraser, James, Ruan, Baiye, Cai, Jingwei, Patterson, Andrew D., Lai, Zhi Chun, Paulson, Robert, 2019

Interplay Between the Host, the Human Microbiome, and Drug Metabolism
Human Genomics, Nichols, Robert, Peters, Jeffrey, Patterson, Andrew D., 2019

Unraveling the role of peroxisome proliferator-activated receptor-β/δ (PPARβ/δ) expression in colon carcinogenesis
npj Precision Oncology, Peters, Jeffrey, Walter, Vonn, Patterson, Andrew David, Gonzalez, Frank, 2019

Isolation and Identification of Aryl Hydrocarbon Receptor Modulators in White Button Mushrooms (Agaricus bisporus)
Journal of Agricultural and Food Chemistry, Tian, Yuan, Gui, Wei, Smith, Philip B., Koo, Imhoi, Murray, Iain A., Cantorna, Margherita, Perdew, Gary H., Patterson, Andrew D., 2019

Gut microbiota and intestinal FXR mediate the clinical benefits of metformin
Nature Medicine, Sun, Lulu, Xie, Cen, Wang, Guang, Wu, Yue, Wu, Qing, Wang, Xuemei, Liu, Jia, Deng, Yangyang, Xia, Jialin, Chen, Bo, Zhang, Songyang, Yun, Chuyu, Lian, Guan, Zhang, Xiujuan, Zhang, Heng, Bisson, William H., Shi, Jingmin, Gao, Xiaoxia, Ge, Pupu, Liu, Cuihua, Krausz, Kristopher W., Nichols, Robert G., Cai, Jingwei, Rimal, Bipin, Patterson, Andrew D., Wang, Xian, Gonzalez, Frank J., Jiang, Changtao, 2018

Structural and Functional Analysis of the Gut Microbiome for Toxicologists
Current protocols in toxicology / editorial board, Mahin D. Maines (editor-in-chief) ... [et al.], Nichols, R, Cai, J, Murray, Iain A., Koo, Imhoi, Smith, Philip B., Perdew, Gary H., Patterson, Andrew D., 2018

Multiplatform physiologic and metabolic phenotyping reveals microbial toxicity
mSystems, Cai, Jingwei, Nichols, Robert G., Koo, Imhoi, Kalikow, Zachary A., Zhang, Limin, Tian, Yuan, Zhang, Jingtao, Smith, Philip B., Patterson, Andrew D., 2018

Metabolomic Approaches Reveal the Role of CAR in Energy Metabolism.
Journal of proteome research, 2018

Dysregulated Microbial Fermentation of Soluble Fiber Induces Cholestatic Liver Cancer
Cell, Singh, Vishal, Yeoh, Beng San, Chassaing, Benoit, Xiao, Xia, Saha, Piu, Aguilera Olvera, Rodrigo, Lapek, John D., Zhang, Limin, Wang, Wei Bei, Hao, Sijie, Flythe, Michael D., Gonzalez, David J., Cani, Patrice D., Conejo-Garcia, Jose R., Xiong, Na, Kennett, Mary J., Joe, Bina, Patterson, Andrew D., Gewirtz, Andrew T., Vijay-Kumar, Matam, 2018

Intestine farnesoid X receptor agonist and the gut microbiota activate G-protein bile acid receptor-1 signaling to improve metabolism
Hepatology, Pathak, P, Xie, C, Nichols, R, Ferrell, J, Boehme, S, Krausz, K, Patterson, Andrew D., Gonzalez, F, Chiang JYL, None, Chiang, John Y.L., 2018

The association of lipophilic phospholipids with native bovine casein micelles in skim milk: Effect of lactation stage and casein micelle size
Journal of Dairy Science, Cheema, M, Smith, P. B., Patterson, Andrew, Hristov, A., Harte, F. M., 2018

Ron Receptor Signaling Ameliorates Hepatic Fibrosis in a Diet-Induced Nonalcoholic Steatohepatitis Mouse Model
Journal of Proteome Research, Allen, Joselyn, Zhang, Jingtao, Quickel, Michael D., Kennett, Mary, Patterson, Andrew D., Hankey-Giblin, Pamela A., 2018

Metabolomics Reveals Aryl Hydrocarbon Receptor Activation Induces Liver and Mammary Gland Metabolic Dysfunction in Lactating Mice
Journal of Proteome Research, Belton, K, Tian, Yuan, Zhang, L, Anitha, M, Smith, Philip B., Perdew, Gary H., Patterson, Andrew D., 2018

Neuroprotective role of the ron receptor tyrosine kinase underlying central nervous system inflammation in health and disease
Frontiers in Immunology, Dey, A, Allen, J, Fraser, J, Snyder, L, Tian, Yuan, Zhang, L, Paulson, Robert, Patterson, Andrew, Cantorna, Margherita T., Hankey-Giblin, Pamela A., 2018

Attenuation of microbiotal dysbiosis and hypertension in a CRISPR/Cas9 gene ablation rat model of GPER1
Hypertension, Waghulde, Harshal, Cheng, Xi, Galla, Sarah, Mell, Blair, Cai, Jingwei, Pruett-Miller, Shondra M., Vazquez, Guillermo, Patterson, Andrew, Kumar, Matam Vijay, Joe, Bina, 2018

Regulation of vitamin D metabolism following disruption of the microbiota using broad spectrum antibiotics
Nutrition Reports International, Bora, Stephanie, Kennett, M, Smith, P, Patterson, A, Cantorna, Margherita, 2018

Lipid metabolism and lipophagy in cancer
Biochemical and Biophysical Research Communications, Maan, Meenu, Peters, Jeffrey, Dutta, Mainak, Patterson, Andrew D., 2018

Molecular Regulation of Carcinogenesis: Friend and Foe
Toxicological Sciences, Patterson, Andrew D., Gonzalez, Frank, Perdew, Gary, Peters, Jeffrey, 2018

Prebiotic effects of white button mushroom (Agaricus bisporus) feeding on succinate and intestinal gluconeogenesis in C57BL/6 mice
Journal of Functional Foods, Tian, Yuan, Nichols, Robert G., Roy, Pratiti, Gui, Wei, Smith, Philip B., Zhang, Jingtao, Lin, Yangding, Weaver, Veronika, Cai, Jingwei, Patterson, Andrew D., Cantorna, Margherita T., 2018

The gut microbiota regulates endocrine vitamin D metabolism through fibroblast growth factor 23
Frontiers in Immunology, Bora, Stephanie, Kennett, M, Smith, Philip B., Patterson, Andrew D., Cantorna, Margherita, 2018

Vitamin A deficiency in mice alters host and gut microbial metabolism leading to altered energy homeostasis
Nutrition Reports International, Tian, Y, Nichols, R, Cai, Jingwei, Patterson, A, Cantorna, Margherita, 2018

Mechanisms: Xenobiotic Receptor-Mediated Toxicity, Perdew, G. H., Murray, I. A., Patterson, A. D., Peters, J. M., 2018

Erratum: Intermittent Fasting Promotes White Adipose Browning and Decreases Obesity by Shaping the Gut Microbiota (Cell Metabolism (2017) 26(4) (672–685.e4) (S1550413117305041) (10.1016/j.cmet.2017.08.019))
Cell Metabolism, Li, Guolin, Xie, Cen, Lu, Siyu, Nichols, Robert G., Tian, Yuan, Li, Licen, Patel, Daxeshkumar, Ma, Yinyan, Brocker, Chad N., Yan, Tingting, Krausz, Kristopher W., Xiang, Rong, Gavrilova, Oksana, Patterson, Andrew D., Gonzalez, Frank J., 2017

Activation of intestinal hypoxia-inducible factor 2α during obesity contributes to hepatic steatosis
Nature Medicine, Xie, Cen, Yagai, Tomoki, Luo, Yuhong, Liang, Xianyi, Chen, Tao, Wang, Qiong, Sun, Dongxue, Zhao, Jie, Ramakrishnan, Sadeesh K., Sun, Lulu, Jiang, Chunmei, Xue, Xiang, Tian, Yuan, Krausz, Kristopher W., Patterson, Andrew D., Shah, Yatrik M., Wu, Yue, Jiang, Changtao, Gonzalez, Frank J., 2017

Intermittent Fasting Promotes White Adipose Browning and Decreases Obesity by Shaping the Gut Microbiota
Cell Metabolism, Li, G, Xie, C, Lu, S, Nichols, R, Tian, Yuan, Li, L, Patel, D, Ma, Y, Brocker, C, Yan, T, Krausz, K, Xiang, R, Gavrilova, O, Patterson, Andrew D., Gonzalez, F, 2017

Dietary broccoli impacts microbial community structure and attenuates chemically induced colitis in mice in an Ah receptor dependent manner
Journal of Functional Foods, Hubbard, Troy D., Murray, Iain A., Nichols, Robert G., Cassel, Kaitlyn, Podolsky, Michael, Kuzu, Guray, Tian, Yuan, Smith, Phillip, Kennett, Mary J., Patterson, Andrew D., Perdew, Gary H., 2017

Identification of a mouse Lactobacillus johnsonii strain with deconjugase activity against the FXR antagonist T-β-MCA
PLoS One, DiMarzio, Michael, Rusconi, Brigida, Yennawar, Neela H., Eppinger, Mark, Patterson, Andrew D., Dudley, Edward G., 2017

Orthogonal Comparison of GC-MS and 1H NMR Spectroscopy for Short Chain Fatty Acid Quantitation
Analytical Chemistry, Cai, Jingwei, Zhang, Jingtao, Tian, Yuan, Zhang, Limin, Hatzakis, Emmanuel, Krausz, Kristopher W., Smith, Philip B., Gonzalez, Frank J., Patterson, Andrew D., 2017

Modulation of urinary siderophores by the diet, gut microbiota and inflammation in mice
Nutrition Reports International, Xiao, Xia, Yeoh, Beng San, Saha, Piu, Tian, Yuan, Singh, Vishal, Patterson, Andrew D., Vijay-Kumar, Matam, 2017

Intestinal Farnesoid X Receptor Signaling Modulates Metabolic Disease
Digestive Diseases, Gonzalez, Frank J., Jiang, Changtao, Xie, Cen, Patterson, Andrew D., 2017

An intestinal farnesoid x receptor-ceramide signaling axis modulates hepatic gluconeogenesis in mice
Diabetes, Xie, Cen, Jiang, Changtao, Shi, Jingmin, Gao, Xiaoxia, Sun, Dongxue, Sun, Lulu, Wang, Ting, Takahashi, Shogo, Anitha, Mallappa, Krausz, Kristopher W., Patterson, Andrew D., Gonzalez, Frank J., 2017

Lipid emulsion added to a liquid high-carbohydrate diet and voluntary running exercise reduce lipogenesis and ameliorate early-stage hepatic steatosis in mice
Journal of Nutrition, Huang, Kuan Hsun, Hao, Lei, Smith, Philip B., Rogers, Connie J., Patterson, Andrew D., Ross, A. Catharine, 2017

The aryl hydrocarbon receptor as a moderator of host-microbiota communication
Current Opinion in Toxicology, Zhang, Limin, Nichols, Robert G., Patterson, Andrew D., 2017

Omics Approaches to Probe Microbiota and Drug Metabolism Interactions
Chemical Research in Toxicology, Nichols, Robert G., Hume, Nicole E., Smith, Philip B., Peters, Jeffrey M., Patterson, Andrew D., 2016

An Intestinal Microbiota–Farnesoid X Receptor Axis Modulates Metabolic Disease
Gastroenterology, Gonzalez, Frank J., Jiang, Changtao, Patterson, Andrew D., 2016

NMR-Based Metabolomics and Its Application in Drug Metabolism and Cancer Research
Current Pharmacology Reports, Zhang, Limin, Hatzakis, Emmanuel, Patterson, Andrew D., 2016

Expression of the aryl hydrocarbon receptor contributes to the establishment of intestinal microbial community structure in mice
Scientific Reports, Murray, Iain A., Nichols, Robert G., Zhang, Limin, Patterson, Andrew D., Perdew, Gary H., 2016

Perfluorooctane sulfonate-choline ion pair formation: A potential mechanism modulating hepatic steatosis and oxidative stress in mice
Toxicological Sciences, Zhang, Limin, Krishnan, Prasad, Ehresman, David J., Smith, Philip B., Dutta, Mainak, Bagley, Bradford D., Chang, Shu Ching, Butenhoff, John L., Patterson, Andrew D., Peters, Jeffrey M., 2016

Farnesoid X receptor signaling shapes the gut microbiota and controls hepatic lipid metabolism
mSystems, Zhang, Limin, Xie, Cen, Nichols, Robert G., Chan, Siu H.J., Jiang, Changtao, Hao, Ruixin, Smith, Philip B., Cai, Jingwei, Simons, Margaret N., Hatzakis, Emmanuel, Maranas, Costas D., Gonzalez, Frank J., Patterson, Andrew D., 2016

Metabolomics reveals altered lipid metabolism in a mouse model of endometriosis
Journal of Proteome Research, Dutta, Mainak, Anitha, Mallappa, Smith, Philip B., Chiaro, Christopher R., Maan, Meenu, Chaudhury, Koel, Patterson, Andrew D., 2016

The ron receptor tyrosine kinase regulates macrophage heterogeneity and plays a protective role in diet-induced obesity, atherosclerosis, and hepatosteatosis
Journal of Immunology, Yu, Shan, Allen, Joselyn N., Dey, Adwitia, Zhang, Limin, Balandaram, Gayathri, Kennett, Mary J., Xia, Mingcan, Xiong, Na, Peters, Jeffrey M., Patterson, Andrew, Hankey-Giblin, Pamela A., 2016

Mass spectrometry-based metabolomics identifies longitudinal urinary metabolite profiles predictive of radiation-induced cancer
Cancer Research, Cook, John A., Chandramouli, Gadisetti V.R., Anver, Miriam R., Sowers, Anastasia L., Thetford, Angela, Krausz, Kristopher W., Gonzalez, Frank J., Mitchell, James B., Patterson, Andrew D., 2016

Impaired recovery from peritoneal inflammation in a mouse model of mild dietary zinc restriction
Die Nahrung, Phillips, B, Geletzke, A, Smith, Philip B., Podany, A, Chacon, A, Kelleher, S, Patterson, Andrew, Soybel, D, 2016

Antioxidant Drug Tempol Promotes Functional Metabolic Changes in the Gut Microbiota
Journal of Proteome Research, Cai, Jingwei, Zhang, Limin, Jones, Richard A., Correll, Jared B., Hatzakis, Emmanuel, Smith, Philip B., Gonzalez, Frank J., Patterson, Andrew D., 2016

Reversing methanogenesis to capture methane for liquid biofuel precursors
Microbial Cell Factories, Soo, Valerie W.C., McAnulty, Michael J., Tripathi, Arti, Zhu, Fayin, Zhang, Limin, Hatzakis, Emmanuel, Smith, Philip B., Agrawal, Saumya, Nazem-Bokaee, Hadi, Gopalakrishnan, Saratram, Salis, Howard M., Ferry, James G., Maranas, Costas D., Patterson, Andrew D., Wood, Thomas K., 2016

Antioxidant Drug Tempol Promotes Functional Metabolic Changes in the Gut Microbiota
J Proteome Res, Cai, J., Zhang, L., Jones, R., Correll, J., Hatzakis, E., Smith, P., Gonzalez, F., Patterson, Andrew, 2016

Intestine-selective farnesoid X receptor inhibition improves obesity-related metabolic dysfunction
Nature Communications, Jiang, Changtao, Xie, Cen, Lv, Ying, Li, Jing, Krausz, Kristopher W., Shi, Jingmin, Brocker, Chad N., Desai, Dhimant, Amin, Shantu G., Bisson, William H., Liu, Yulan, Gavrilova, Oksana, Patterson, Andrew D., Gonzalez, Frank J., 2015

Kernel approaches for differential expression analysis of mass spectrometry-based metabolomics data
BMC Bioinformatics, Zhan, Xiang, Patterson, Andrew D., Ghosh, Debashis, 2015

Lack of soluble fiber drives diet-induced adiposity in mice
American Journal of Physiology, Chassaing, Benoit, Miles-Brown, Jennifer, Pellizzon, Michael, Ulman, Edward, Ricci, Matthew, Zhang, Limin, Patterson, Andrew D., Vijay-Kumar, Matam, Gewirtz, Andrew T., 2015

Adaptation of the human aryl hydrocarbon receptor to sense microbiota-derived indoles
Scientific Reports, Hubbard, Troy D., Murray, Iain A., Bisson, William H., Lahoti, Tejas S., Gowda, Krishne, Amin, Shantu G., Patterson, Andrew D., Perdew, Gary H., 2015

Metabolomics Reveals that Aryl Hydrocarbon Receptor Activation by Environmental Chemicals Induces Systemic Metabolic Dysfunction in Mice
Environmental Science & Technology, Zhang, Limin, Hatzakis, Emmanuel, Nichols, Robert G., Hao, Ruixin, Correll, Jared, Smith, Philip B., Chiaro, Christopher R., Perdew, Gary H., Patterson, Andrew D., 2015

Persistent organic pollutants modify gut microbiota–host metabolic homeostasis in mice through aryl hydrocarbon receptor activation
Environmental Health Perspectives, Zhang, Limin, Nichols, Robert G., Correll, Jared, Murray, Iain A., Tanaka, Naoki, Smith, Philip B., Hubbard, Troy D., Sebastian, Aswathy, Albert, Istvan, Hatzakis, Emmanuel, Gonzalez, Frank J., Perdew, Gary H., Patterson, Andrew D., 2015

Role of fibroblast growth factor 21 in the early stage of NASH induced by methionine- and choline-deficient diet
Biochimica et Biophysica Acta - Molecular Basis of Disease, Tanaka, Naoki, Takahashi, Shogo, Zhang, Yuan, Krausz, Kristopher W., Smith, Philip B., Patterson, Andrew D., Gonzalez, Frank J., 2015

Inhibition of farnesoid X receptor signaling shows beneficial effects in human obesity
Journal of Hepatology, Gonzalez, Frank J., Jiang, Changtao, Bisson, William H., Patterson, Andrew D., 2015

Modulation of colon cancer by nutmeg
Journal of Proteome Research, Li, Fei, Yang, Xiu Wei, Krausz, Kristopher W., Nichols, Robert G., Xu, Wei, Patterson, Andrew D., Gonzalez, Frank J., 2015

Quantitative analysis of purine nucleotides indicates that purinosomes increase de Novo purine biosynthesis
Journal of Biological Chemistry, Zhao, Hong, Chiaro, Christopher R., Zhang, Limin, Smith, Philip B., Chan, Chung Yu, Pedley, Anthony M., Pugh, Raymond J., French, Jarrod B., Patterson, Andrew D., Benkovic, Stephen J., 2015

Intestinal farnesoid X receptor signaling promotes nonalcoholic fatty liver disease
Journal of Clinical Investigation, Jiang, Changtao, Xie, Cen, Li, Fei, Zhang, Limin, Nichols, Robert G., Krausz, Kristopher W., Cai, Jingwei, Qi, Yunpeng, Fang, Zhong Ze, Takahashi, Shogo, Tanaka, Naoki, Desai, Dhimant, Amin, Shantu G., Albert, Istvan, Patterson, Andrew D., Gonzalez, Frank J., 2015

Microbiota-Dependent Hepatic Lipogenesis Mediated by Stearoyl CoA Desaturase 1 (SCD1) Promotes Metabolic Syndrome in TLR5-Deficient Mice
Cell Metabolism, Singh, Vishal, Chassaing, Benoit, Zhang, Limin, San Yeoh, Beng, Xiao, Xia, Kumar, Manish, Baker, Mark T., Cai, Jingwei, Walker, Rachel, Borkowski, Kamil, Harvatine, Kevin J., Singh, Nagendra, Shearer, Gregory C., Ntambi, James M., Joe, Bina, Patterson, Andrew D., Gewirtz, Andrew T., Vijay-Kumar, Matam, 2015

Aryl hydrocarbon receptor ligands in cancer: Friend and foe
Nature Reviews Cancer, Murray, Iain A., Patterson, Andrew D., Perdew, Gary H., 2014

Microbial determinants of biochemical individuality and their impact on toxicology and pharmacology
Cell Metabolism, Patterson, Andrew D., Turnbaugh, Peter J., 2014

Crucial role of macrophage selenoproteins in experimental colitis
Journal of Immunology, Kaushal, Naveen, Kudva, Avinash K., Patterson, Andrew D., Chiaro, Christopher, Kennett, Mary J., Desai, Dhimant, Amin, Shantu, Carlson, Bradley A., Cantorna, Margherita T., Prabhu, K. Sandeep, 2014

Species-specific ant brain manipulation by a specialized fungal parasite
BMC Evolutionary Biology, De Bekker, Charissa, Quevillon, Lauren E., Smith, Philip B., Fleming, Kimberly R., Ghosh, Debashis, Patterson, Andrew D., Hughes, David P., 2014

Noninvasive urinary metabolomic profiling identifies diagnostic and prognostic markers in lung cancer
Cancer Research, Mathé, Ewy A., Patterson, Andrew D., Haznadar, Majda, Manna, Soumen K., Krausz, Kristopher W., Bowman, Elise D., Shields, Peter G., Idle, Jeffrey R., Smith, Philip B., Anami, Katsuhiro, Kazandjian, Dickran G., Hatzakis, Emmanuel, Gonzalez, Frank J., Harris, Curtis C., 2014

Metabolomics, Belton, Belton R., Correll, Jared B., Patterson, Andrew D., 2014

Metabolomics: Application of High-Resolution Mass Spectrometry
Future Medicine, Belton, K., Correll, J., Patterson, Andrew, 2014