Publications

Rusconi, B. A. and R. D. Newberry 2021.
The microbial one-hit wonder.
J Exp Med 218. 10.1084/jem.20211382

Kulkarni, D. H. and R. D. Newberry 2021.
A Novel Role of Circular RNA in Intestinal Epithelial Repair. Gastroenterology. 10.1053/j.gastro.2021.07.031

Kosinsky, R. L., M. Zerche, A. P. Kutschat, A. Nair, Z. Ye, D. Saul, M. von Heesen, J. J. Friton, A. C. Schwarzer, N. Paglilla, S. Z. Sheikh, F. Wegwitz, Z. Sun, M. Ghadimi, R. D. Newberry, R. B. Sartor, W. A. Faubion and S. A. Johnsen 2021.
RNF20 and RNF40 regulate vitamin D receptor-dependent signaling in inflammatory bowel disease.
Cell Death Differ. 10.1038/s41418-021-00808-w

Sécca, C., J. K. Bando, J. L. Fachi, S. Gilfillan, V. Peng, B. Di Luccia, M. Cella, K. G. McDonald, R. D. Newberry and M. Colonna 2021.
Spatial distribution of LTi-like cells in intestinal mucosa regulates type 3 innate immunity.
Proc Natl Acad Sci U S A 118. 10.1073/pnas.2101668118

Noah, T. K., J. B. Lee, C. A. Brown, A. Yamani, S. Tomar, V. Ganesan, R. D. Newberry, G. B. Huffnagle, S. Divanovic and S. P. Hogan 2021.
Thermoneutrality Alters Gastrointestinal Antigen Passage Patterning and Predisposes to Oral Antigen Sensitization in Mice.
Front Immunol 12: 636198. 10.3389/fimmu.2021.636198

Wang, M. H., J. J. Friton, L. E. Raffals, J. A. Leighton, S. F. Pasha, M. F. Picco, K. Monroe, B. D. Nix, R. D. Newberry and W. A. Faubion 2021.
Novel Genetic Variant Predicts Surgical Recurrence Risk in Crohn’s Disease Patients.
Inflamm Bowel Dis. 10.1093/ibd/izaa362

Ingle, H., E. Hassan, J. Gawron, B. Mihi, Y. Li, E. A. Kennedy, G. Kalugotla, H. Makimaa, S. Lee, P. Desai, K. G. McDonald, M. S. Diamond, R. D. Newberry, M. Good and M. T. Baldridge 2021.
Murine astrovirus tropism for goblet cells and enterocytes facilitates an IFN-λ response in vivo and in enteroid cultures.
Mucosal Immunol 14: 751-761. 10.1038/s41385-021-00387-6

Knoop, K. A., K. G. McDonald, C. S. Hsieh, P. I. Tarr and R. D. Newberry 2020.
Regulatory T Cells Developing Peri-Weaning Are Continually Required to Restrain Th2 Systemic Responses Later in Life. Front Immunol 11: 603059. 10.3389/fimmu.2020.603059

Somineni, H. K., S. Nagpal, S. Venkateswaran, D. J. Cutler, D. T. Okou, T. Haritunians, C. L. Simpson, F. Begum, L. W. Datta, A. J. Quiros, J. Seminerio, E. Mengesha, J. S. Alexander, R. N. Baldassano, S. Dudley-Brown, R. K. Cross, T. Dassopoulos, L. A. Denson, T. A. Dhere, H. Iskandar, G. W. Dryden, J. K. Hou, S. Z. Hussain, J. S. Hyams, K. L. Isaacs, H. Kader, M. D. Kappelman, J. Katz, R. Kellermayer, J. F. Kuemmerle, M. Lazarev, E. Li, P. Mannon, D. E. Moulton, R. D. Newberry, A. S. Patel, J. Pekow, S. A. Saeed, J. F. Valentine, M. H. Wang, J. L. McCauley, M. TAbreu, T. Jester, Z. Molle-Rios, S. Palle, E. J. Scherl, J. Kwon, J. D. Rioux, R. H. Duerr, M. S. Silverberg, M. E. Zwick, C. Stevens, M. J. Daly, J. H. Cho, G. Gibson, D. P. B. McGovern, S. R. Brant and S. Kugathasan 2021.
Whole-genome sequencing of African Americans implicates differential genetic architecture in inflammatory bowel disease.
Am J Hum Genet 108: 431-445. 10.1016/j.ajhg.2021.02.001

Yokanovich, L. T., R. D. Newberry and K. A. Knoop 2021. Regulation of oral antigen delivery early in life: Implications for oral tolerance and food allergy.
Clin Exp Allergy 51: 518-526. 10.1111/cea.13823

Rengarajan, S., K. A. Knoop, A. Rengarajan, J. N. Chai, J. G. Grajales-Reyes, V. K. Samineni, E. V. Russler-Germain, P. Ranganathan, A. Fasano, G. S. Sayuk, R. W. t. Gereau, A. L. Kau, D. Knights, P. C. Kashyap, M. A. Ciorba, R. D. Newberry and C. S. Hsieh 2020.
A Potential Role for Stress-Induced Microbial Alterations in IgA-Associated Irritable Bowel Syndrome with Diarrhea.
Cell Rep Med 1. 10.1016/j.xcrm.2020.100124

Newberry, R. D. and S. P. Hogan 2021.
Intestinal epithelial cells in tolerance and allergy to dietary antigens.
J Allergy Clin Immunol 147: 45-48. 10.1016/j.jaci.2020.10.030

Courtney, C. M., E. J. Onufer, K. G. McDonald, A. E. Steinberger, A. M. Sescleifer, K. M. Seiler, M. E. Tecos, R. D. Newberry and B. W. Warner 2021.
Small Bowel Resection Increases Paracellular Gut Barrier Permeability via Alterations of Tight Junction Complexes Mediated by Intestinal TLR4.
J Surg Res 258: 73-81. 10.1016/j.jss.2020.08.049

Knoop, K. A., K. G. McDonald, P. E. Coughlin, D. H. Kulkarni, J. K. Gustafsson, B. Rusconi, V. John, I. M. Ndao, A. Beigelman, M. Good, B. B. Warner, C. O. Elson, C. S. Hsieh, S. P. Hogan, P. I. Tarr and R. D. Newberry 2020.
Synchronization of mothers and offspring promotes tolerance and limits allergy.
JCI Insight 5. 10.1172/jci.insight.137943

Shahir, N. M., J. R. Wang, E. A. Wolber, M. S. Schaner, D. N. Frank, D. Ir, C. E. Robertson, N. Chaumont, T. S. Sadiq, M. J. Koruda, R. Rahbar, B. D. Nix, R. D. Newberry, R. B. Sartor, S. Z. Sheikh and T. S. Furey 2020.
Crohn’s Disease Differentially Affects Region-Specific Composition and Aerotolerance Profiles of Mucosally Adherent Bacteria.
Inflamm Bowel Dis 26: 1843-1855. 10.1093/ibd/izaa103

Knoop, K. A., P. E. Coughlin, A. N. Floyd, I. M. Ndao, C. Hall-Moore, N. Shaikh, A. J. Gasparrini, B. Rusconi, M. Escobedo, M. Good, B. B. Warner, P. I. Tarr and R. D. Newberry 2020.
Maternal activation of the EGFR prevents translocation of gut-residing pathogenic Escherichia coli in a model of late-onset neonatal sepsis.
Proc Natl Acad Sci U S A 117: 7941-7949. 10.1073/pnas.1912022117

Knoop, K. A., D. H. Kulkarni, K. G. McDonald, J. K. Gustafsson, J. E. Davis, A. N. Floyd and R. D. Newberry 2020.
In vivo labeling of epithelial cell-associated antigen passages in the murine intestine.
Lab Anim (NY) 49: 79-88. 10.1038/s41684-019-0438-z

Kulkarni, D. H., J. K. Gustafsson, K. A. Knoop, K. G. McDonald, S. S. Bidani, J. E. Davis, A. N. Floyd, S. P. Hogan, C. S. Hsieh and R. D. Newberry 2020.
Goblet cell associated antigen passages support the induction and maintenance of oral tolerance.
Mucosal Immunol 13: 271-282. 10.1038/s41385-019-0240-7

Zhang, C. R. C., D. Nix, M. Gregory, M. A. Ciorba, E. L. Ostrander, R. D. Newberry, D. H. Spencer and G. A. Challen 2019.
Inflammatory cytokines promote clonal hematopoiesis with specific mutations in ulcerative colitis patients.
Exp Hematol 80: 36-41.e33. 10.1016/j.exphem.2019.11.008

Wang, M. H., O. Y. Mousa, J. J. Friton, L. E. Raffals, J. A. Leighton, S. F. Pasha, M. F. Picco, K. C. Cushing, K. Monroe, B. D. Nix, R. D. Newberry and W. A. Faubion 2020.
Unique Phenotypic Characteristics and Clinical Course in Patients With Ulcerative Colitis and Primary Sclerosing Cholangitis: A Multicenter US Experience.
Inflamm Bowel Dis 26: 774-779. 10.1093/ibd/izz209

Durai, V., P. Bagadia, J. M. Granja, A. T. Satpathy, D. H. Kulkarni, J. T. t. Davidson, R. Wu, S. J. Patel, A. Iwata, T. T. Liu, X. Huang, C. G. Briseño, G. E. Grajales-Reyes, M. Wöhner, H. Tagoh, B. L. Kee, R. D. Newberry, M. Busslinger, H. Y. Chang, T. L. Murphy and K. M. Murphy 2019.
Cryptic activation of an Irf8 enhancer governs cDC1 fate specification.
Nat Immunol 20: 1161-1173. 10.1038/s41590-019-0450-x

Cervantes-Barragan, L., V. S. Cortez, Q. Wang, K. G. McDonald, J. N. Chai, B. Di Luccia, S. Gilfillan, C. S. Hsieh, R. D. Newberry, L. D. Sibley and M. Colonna 2019.
CRTAM Protects Against Intestinal Dysbiosis During Pathogenic Parasitic Infection by Enabling Th17 Maturation. Front Immunol 10: 1423. 10.3389/fimmu.2019.01423

Rengarajan, S., E. E. Vivio, M. Parkes, D. A. Peterson, E. D. O. Roberson, R. D. Newberry, M. A. Ciorba and C. S. Hsieh 2020.
Dynamic immunoglobulin responses to gut bacteria during inflammatory bowel disease.
Gut Microbes 11: 405-420. 10.1080/19490976.2019.1626683

Noah, T. K., K. A. Knoop, K. G. McDonald, J. K. Gustafsson, L. Waggoner, S. Vanoni, M. Batie, K. Arora, A. P. Naren, Y. H. Wang, N. W. Lukacs, A. Munitz, M. A. Helmrath, M. M. Mahe, R. D. Newberry and S. P. Hogan 2019.
IL-13-induced intestinal secretory epithelial cell antigen passages are required for IgE-mediated food-induced anaphylaxis.
J Allergy Clin Immunol 144: 1058-1073.e1053. 10.1016/j.jaci.2019.04.030

Scott, F. I., D. T. Rubin, S. Kugathasan, A. Bousvaros, C. O. Elson, R. D. Newberry, G. Y. Melmed, J. Pekow, J. W. Fleshman, B. M. Boyle, U. Mahadevan, L. M. Cannon, M. D. Long, R. K. Cross, C. Y. Ha, K. L. Lasch, A. M. Robinson, J. F. Rafferty, J. J. Lee, K. D. C. Dahl, A. Weaver, N. Shtraizent, G. Honig, A. Hurtado-Lorenzo and C. A. Heller 2019.
Challenges in IBD Research: Pragmatic Clinical Research. Inflamm Bowel Dis 25: S40-s47. 10.1093/ibd/izz085

Kulkarni, D. H. and R. D. Newberry 2019.
Intestinal Macromolecular Transport Supporting Adaptive Immunity.
Cell Mol Gastroenterol Hepatol 7: 729-737. 10.1016/j.jcmgh.2019.01.003

Wang, M. H., J. J. Friton, L. E. Raffals, J. A. Leighton, S. F. Pasha, M. F. Picco, K. C. Cushing, K. Monroe, B. D. Nix, R. D. Newberry and W. A. Faubion 2019.
Novel Genetic Risk Variants Can Predict Anti-TNF Agent Response in Patients With Inflammatory Bowel Disease.
J Crohns Colitis 13: 1036-1043. 10.1093/ecco-jcc/jjz017

Knoop, K. A., L. R. Holtz and R. D. Newberry 2018.
Inherited nongenetic influences on the gut microbiome and immune system.
Birth Defects Res 110: 1494-1503. 10.1002/bdr2.1436

Cushing, K. C., R. McLean, K. G. McDonald, J. K. Gustafsson, K. A. Knoop, D. H. Kulkarni, R. B. Sartor and R. D. Newberry 2019.
Predicting Risk of Postoperative Disease Recurrence in Crohn’s Disease: Patients With Indolent Crohn’s Disease Have Distinct Whole Transcriptome Profiles at the Time of First Surgery.
Inflamm Bowel Dis 25: 180-193. 10.1093/ibd/izy228

Knoop, K. A. and R. D. Newberry 2018.
Goblet cells: multifaceted players in immunity at mucosal surfaces.
Mucosal Immunol 11: 1551-1557. 10.1038/s41385-018-0039-y

Bando, J. K., S. Gilfillan, C. Song, K. G. McDonald, S. C. Huang, R. D. Newberry, Y. Kobayashi, D. S. J. Allan, J. R. Carlyle, M. Cella and M. Colonna 2018.
The Tumor Necrosis Factor Superfamily Member RANKL Suppresses Effector Cytokine Production in Group 3 Innate Lymphoid Cells.
Immunity 48: 1208-1219.e1204. 10.1016/j.immuni.2018.04.012

Kulkarni, D. H., K. G. McDonald, K. A. Knoop, J. K. Gustafsson, K. M. Kozlowski, D. A. Hunstad, M. J. Miller and R. D. Newberry 2018.
Goblet cell associated antigen passages are inhibited during Salmonella typhimurium infection to prevent pathogen dissemination and limit responses to dietary antigens. Mucosal Immunol 11: 1103-1113. 10.1038/s41385-018-0007-6

Knoop, K. A., J. K. Gustafsson, K. G. McDonald, D. H. Kulkarni, P. E. Coughlin, S. McCrate, D. Kim, C. S. Hsieh, S. P. Hogan, C. O. Elson, P. I. Tarr and R. D. Newberry 2017.
Microbial antigen encounter during a preweaning interval is critical for tolerance to gut bacteria.
Sci Immunol 2. 10.1126/sciimmunol.aao1314

Patel, A., S. Hasak, B. D. Nix, G. S. Sayuk, R. D. Newberry and C. P. Gyawali 2018.
Genetic risk factors for perception of symptoms in GERD: an observational cohort study.
Aliment Pharmacol Ther 47: 289-297. 10.1111/apt.14414

McDonald, K. G., L. W. Wheeler, J. R. McDole, S. Joerger, J. K. Gustafsson, D. H. Kulkarni, K. A. Knoop, I. R. Williams, M. J. Miller and R. D. Newberry 2017.
CCR6 promotes steady-state mononuclear phagocyte association with the intestinal epithelium, imprinting and immune surveillance.
Immunology 152: 613-627. 10.1111/imm.12801

Chai, J. N., Y. Peng, S. Rengarajan, B. D. Solomon, T. L. Ai, Z. Shen, J. S. A. Perry, K. A. Knoop, T. Tanoue, S. Narushima, K. Honda, C. O. Elson, R. D. Newberry, T. S. Stappenbeck, A. L. Kau, D. A. Peterson, J. G. Fox and C. S. Hsieh 2017.
Helicobacter species are potent drivers of colonic T cell responses in homeostasis and inflammation.
Sci Immunol 2. 10.1126/sciimmunol.aal5068

Knoop, K. A., J. K. Gustafsson, K. G. McDonald, D. H. Kulkarni, R. Kassel and R. D. Newberry 2017.
Antibiotics promote the sampling of luminal antigens and bacteria via colonic goblet cell associated antigen passages. Gut Microbes 8: 400-411. 10.1080/19490976.2017.1299846

Brant, S. R., D. T. Okou, C. L. Simpson, D. J. Cutler, T. Haritunians, J. P. Bradfield, P. Chopra, J. Prince, F. Begum, A. Kumar, C. Huang, S. Venkateswaran, L. W. Datta, Z. Wei, K. Thomas, L. J. Herrinton, J. A. Klapproth, A. J. Quiros, J. Seminerio, Z. Liu, J. S. Alexander, R. N. Baldassano, S. Dudley-Brown, R. K. Cross, T. Dassopoulos, L. A. Denson, T. A. Dhere, G. W. Dryden, J. S. Hanson, J. K. Hou, S. Z. Hussain, J. S. Hyams, K. L. Isaacs, H. Kader, M. D. Kappelman, J. Katz, R. Kellermayer, B. S. Kirschner, J. F. Kuemmerle, J. H. Kwon, M. Lazarev, E. Li, D. Mack, P. Mannon, D. E. Moulton, R. D. Newberry, B. O. Osuntokun, A. S. Patel, S. A. Saeed, S. R. Targan, J. F. Valentine, M. H. Wang, M. Zonca, J. D. Rioux, R. H. Duerr, M. S. Silverberg, J. H. Cho, H. Hakonarson, M. E. Zwick, D. P. McGovern and S. Kugathasan 2017.
Genome-Wide Association Study Identifies African-Specific Susceptibility Loci in African Americans With Inflammatory Bowel Disease.
Gastroenterology 152: 206-217.e202. 10.1053/j.gastro.2016.09.032

Peloquin, J. M., G. Goel, L. Kong, H. Huang, T. Haritunians, R. B. Sartor, M. J. Daly, R. D. Newberry, D. P. McGovern, V. Yajnik, S. A. Lira and R. J. Xavier 2016.
Characterization of candidate genes in inflammatory bowel disease-associated risk loci.
JCI Insight 1: e87899. 10.1172/jci.insight.87899

Knoop, K. A., K. G. McDonald, D. H. Kulkarni and R. D. Newberry 2016.
Antibiotics promote inflammation through the translocation of native commensal colonic bacteria.
Gut 65: 1100-1109. 10.1136/gutjnl-2014-309059

Geem, D., V. Ngo, A. Harusato, B. Chassaing, A. T. Gewirtz, R. D. Newberry and T. L. Denning 2016.
Contribution of Mesenteric Lymph Nodes and GALT to the Intestinal Foxp3+ Regulatory T-Cell Compartment.
Cell Mol Gastroenterol Hepatol 2: 274-280. 10.1016/j.jcmgh.2015.12.009

Song, C., J. S. Lee, S. Gilfillan, M. L. Robinette, R. D. Newberry, T. S. Stappenbeck, M. Mack, M. Cella and M. Colonna 2015.
Unique and redundant functions of NKp46+ ILC3s in models of intestinal inflammation.
J Exp Med 212: 1869-1882. 10.1084/jem.20151403

Knoop, K. A., K. G. McDonald, S. McCrate, J. R. McDole and R. D. Newberry 2015.
Microbial sensing by goblet cells controls immune surveillance of luminal antigens in the colon.
Mucosal Immunol 8: 198-210. 10.1038/mi.2014.58

Miller, M. J., K. A. Knoop and R. D. Newberry 2014.
Mind the GAPs: insights into intestinal epithelial barrier maintenance and luminal antigen delivery.
Mucosal Immunol 7: 452-454. 10.1038/mi.2014.4

Geem, D., O. Medina-Contreras, M. McBride, R. D. Newberry, P. A. Koni and T. L. Denning 2014.
Specific microbiota-induced intestinal Th17 differentiation requires MHC class II but not GALT and mesenteric lymph nodes.
J Immunol 193: 431-438. 10.4049/jimmunol.1303167

Cortez, V. S., L. Cervantes-Barragan, C. Song, S. Gilfillan, K. G. McDonald, R. Tussiwand, B. T. Edelson, Y. Murakami, K. M. Murphy, R. D. Newberry, L. D. Sibley and M. Colonna 2014. CRTAM controls residency of gut CD4+CD8+ T cells in the steady state and maintenance of gut CD4+ Th17 during parasitic infection.
J Exp Med 211: 623-633. 10.1084/jem.20130904

Thaker, A. I., M. S. Rao, K. S. Bishnupuri, T. A. Kerr, L. Foster, J. M. Marinshaw, R. D. Newberry, W. F. Stenson and M. A. Ciorba 2013.
IDO1 metabolites activate β-catenin signaling to promote cancer cell proliferation and colon tumorigenesis in mice. Gastroenterology 145: 416-425.e411-414. 10.1053/j.gastro.2013.05.002

Satpathy, A. T., C. G. Briseño, J. S. Lee, D. Ng, N. A. Manieri, W. Kc, X. Wu, S. R. Thomas, W. L. Lee, M. Turkoz, K. G. McDonald, M. M. Meredith, C. Song, C. J. Guidos, R. D. Newberry, W. Ouyang, T. L. Murphy, T. S. Stappenbeck, J. L. Gommerman, M. C. Nussenzweig, M. Colonna, R. Kopan and K. M. Murphy 2013.
Notch2-dependent classical dendritic cells orchestrate intestinal immunity to attaching-and-effacing bacterial pathogens.
Nat Immunol 14: 937-948. 10.1038/ni.2679

Kushnir, V. M., B. Cassell, C. P. Gyawali, R. D. Newberry, P. Kibe, B. D. Nix, A. Sabzpoushan, N. D. Kanuri and G. S. Sayuk 2013.
Genetic variation in the beta-2 adrenergic receptor (ADRB2) predicts functional gastrointestinal diagnoses and poorer health-related quality of life.
Aliment Pharmacol Ther 38: 313-323. 10.1111/apt.12378

Knoop, K. A., M. J. Miller and R. D. Newberry 2013. Transepithelial antigen delivery in the small intestine: different paths, different outcomes.
Curr Opin Gastroenterol 29: 112-118. 10.1097/MOG.0b013e32835cf1cd

Grasberger, H., L. Chang, W. Shih, A. P. Presson, G. S. Sayuk, R. D. Newberry, I. Karagiannides, C. Pothoulakis, E. Mayer and J. L. Merchant 2013.
Identification of a functional TPH1 polymorphism associated with irritable bowel syndrome bowel habit subtypes.
Am J Gastroenterol 108: 1766-1774. 10.1038/ajg.2013.304

Fuchs, A., W. Vermi, J. S. Lee, S. Lonardi, S. Gilfillan, R. D. Newberry, M. Cella and M. Colonna 2013.
Intraepithelial type 1 innate lymphoid cells are a unique subset of IL-12- and IL-15-responsive IFN-γ-producing cells.
Immunity 38: 769-781. 10.1016/j.immuni.2013.02.010

Zhang, T., B. Song, W. Zhu, X. Xu, Q. Q. Gong, C. Morando, T. Dassopoulos, R. D. Newberry, S. R. Hunt and E. Li 2012.
An ileal Crohn’s disease gene signature based on whole human genome expression profiles of disease unaffected ileal mucosal biopsies.
PLoS One 7: e37139. 10.1371/journal.pone.0037139

Zhang, T., R. A. DeSimone, X. Jiao, F. J. Rohlf, W. Zhu, Q. Q. Gong, S. R. Hunt, T. Dassopoulos, R. D. Newberry, E. Sodergren, G. Weinstock, C. E. Robertson, D. N. Frank and E. Li 2012.
Host genes related to paneth cells and xenobiotic metabolism are associated with shifts in human ileum-associated microbial composition.
PLoS One 7: e30044. 10.1371/journal.pone.0030044

McDonald, K. G., M. R. Leach, K. W. M. Brooke, C. Wang, L. W. Wheeler, E. K. Hanly, C. W. Rowley, M. S. Levin, M. Wagner, E. Li and R. D. Newberry 2012.
Epithelial expression of the cytosolic retinoid chaperone cellular retinol binding protein II is essential for in vivo imprinting of local gut dendritic cells by lumenal retinoids. Am J Pathol 180: 984-997. 10.1016/j.ajpath.2011.11.009

McDole, J. R., L. W. Wheeler, K. G. McDonald, B. Wang, V. Konjufca, K. A. Knoop, R. D. Newberry and M. J. Miller 2012. Goblet cells deliver luminal antigen to CD103+ dendritic cells in the small intestine.
Nature 483: 345-349. 10.1038/nature10863

Knoop, K. A. and R. D. Newberry 2012.
Isolated Lymphoid Follicles are Dynamic Reservoirs for the Induction of Intestinal IgA.
Front Immunol 3: 84. 10.3389/fimmu.2012.00084

McDonald, K. G., M. R. Leach, C. Huang, C. Wang and R. D. Newberry 2011.
Aging impacts isolated lymphoid follicle development and function.
Immun Ageing 8: 1. 10.1186/1742-4933-8-1

Lee, J. S., M. Cella, K. G. McDonald, C. Garlanda, G. D. Kennedy, M. Nukaya, A. Mantovani, R. Kopan, C. A. Bradfield, R. D. Newberry and M. Colonna 2011.
AHR drives the development of gut ILC22 cells and postnatal lymphoid tissues via pathways dependent on and independent of Notch.
Nat Immunol 13: 144-151. 10.1038/ni.2187

Knoop, K. A., B. R. Butler, N. Kumar, R. D. Newberry and I. R. Williams 2011.
Distinct developmental requirements for isolated lymphoid follicle formation in the small and large intestine: RANKL is essential only in the small intestine.
Am J Pathol 179: 1861-1871. 10.1016/j.ajpath.2011.06.004

Wang, C., E. K. Hanly, L. W. Wheeler, M. Kaur, K. G. McDonald and R. D. Newberry 2010.
Effect of α4β7 blockade on intestinal lymphocyte subsets and lymphoid tissue development.
Inflamm Bowel Dis 16: 1751-1762. 10.1002/ibd.21266

Miller, M. J., J. R. McDole and R. D. Newberry 2010. Microanatomy of the intestinal lymphatic system.
Ann N Y Acad Sci 1207 Suppl 1: E21-28. 10.1111/j.1749-6632.2010.05708.x

McDonald, K. G., J. S. McDonough, B. K. Dieckgraefe and R. D. Newberry 2010.
Dendritic cells produce CXCL13 and participate in the development of murine small intestine lymphoid tissues. Am J Pathol 176: 2367-2377. 10.2353/ajpath.2010.090723

Ha, C. Y., R. D. Newberry, C. D. Stone and M. A. Ciorba 2010. Patients with late-adult-onset ulcerative colitis have better outcomes than those with early onset disease.
Clin Gastroenterol Hepatol 8: 682-687.e681. 10.1016/j.cgh.2010.03.022

Ciorba, M. A., E. E. Bettonville, K. G. McDonald, R. Metz, G. C. Prendergast, R. D. Newberry and W. F. Stenson 2010. Induction of IDO-1 by immunostimulatory DNA limits severity of experimental colitis.
J Immunol 184: 3907-3916. 10.4049/jimmunol.0900291

Wang, C., J. S. McDonough, K. G. McDonald, C. Huang and R. D. Newberry 2008.
Alpha4beta7/MAdCAM-1 interactions play an essential role in transitioning cryptopatches into isolated lymphoid follicles and a nonessential role in cryptopatch formation.
J Immunol 181: 4052-4061. 10.4049/jimmunol.181.6.4052

Velázquez, P., B. Wei, M. McPherson, L. M. Mendoza, S. L. Nguyen, O. Turovskaya, M. Kronenberg, T. T. Huang, M. Schrage, L. N. Lobato, D. Fujiwara, S. Brewer, M. Arditi, G. Cheng, R. B. Sartor, R. D. Newberry and J. Braun 2008.
Villous B cells of the small intestine are specialized for invariant NK T cell dependence.
J Immunol 180: 4629-4638. 10.4049/jimmunol.180.7.4629

Newberry, R. D. 2008.
Intestinal lymphoid tissues: is variety an asset or a liability? Curr Opin Gastroenterol 24: 121-128. 10.1097/MOG.0b013e3282f4906d

Taylor, R. T., S. R. Patel, E. Lin, B. R. Butler, J. G. Lake, R. D. Newberry and I. R. Williams 2007.
Lymphotoxin-independent expression of TNF-related activation-induced cytokine by stromal cells in cryptopatches, isolated lymphoid follicles, and Peyer’s patches.
J Immunol 178: 5659-5667. 10.4049/jimmunol.178.9.5659

McDonald, K. G. and R. D. Newberry 2007.
Whole-mount techniques to evaluate subepithelial cellular populations in the adult mouse intestine.
Biotechniques 43: 50, 52, 54 passim. 10.2144/000112514

McDonald, K. G., J. S. McDonough, C. Wang, T. Kucharzik, I. R. Williams and R. D. Newberry 2007.
CC chemokine receptor 6 expression by B lymphocytes is essential for the development of isolated lymphoid follicles. Am J Pathol 170: 1229-1240. 10.2353/ajpath.2007.060817

Blanc, V., J. O. Henderson, R. D. Newberry, Y. Xie, S. J. Cho, E. P. Newberry, S. Kennedy, D. C. Rubin, H. L. Wang, J. Luo and N. O. Davidson 2007.
Deletion of the AU-rich RNA binding protein Apobec-1 reduces intestinal tumor burden in Apc(min) mice.
Cancer Res 67: 8565-8573. 10.1158/0008-5472.Can-07-1593

Wang, C., K. G. McDonald, J. S. McDonough and R. D. Newberry 2006.
Murine isolated lymphoid follicles contain follicular B lymphocytes with a mucosal phenotype.
Am J Physiol Gastrointest Liver Physiol 291: G595-604. 10.1152/ajpgi.00525.2005

Sainathan, S. K., L. Tu, K. S. Bishnupuri, M. Han, A. Li, R. D. Newberry, K. G. McDonald, D. L. Crimmins, C. Houchen, S. Anant and B. K. Dieckgraefe 2005.
PEGylated murine Granulocyte-macrophage colony-stimulating factor: production, purification, and characterization.
Protein Expr Purif 44: 94-103. 10.1016/j.pep.2005.08.014

Newberry, R. D. and R. G. Lorenz 2005.
Organizing a mucosal defense.
Immunol Rev 206: 6-21. 10.1111/j.0105-2896.2005.00282.x

Newberry, R. D. 2005.
Basic research for the clinical trainee: from bedside to bench.
Gastrointest Endosc 61: 869-870. 10.1016/s0016-5107(05)00378-0

McDonald, K. G., J. S. McDonough and R. D. Newberry 2005. Adaptive immune responses are dispensable for isolated lymphoid follicle formation: antigen-naive, lymphotoxin-sufficient B lymphocytes drive the formation of mature isolated lymphoid follicles.
J Immunol 174: 5720-5728. 10.4049/jimmunol.174.9.5720

Handley, S. A., R. D. Newberry and V. L. Miller 2005.
Yersinia enterocolitica invasin-dependent and invasin-independent mechanisms of systemic dissemination.
Infect Immun 73: 8453-8455. 10.1128/iai.73.12.8453-8455.2005

Riehl, T. E., R. D. Newberry, R. G. Lorenz and W. F. Stenson 2004.
TNFR1 mediates the radioprotective effects of lipopolysaccharide in the mouse intestine.
Am J Physiol Gastrointest Liver Physiol 286: G166-173. 10.1152/ajpgi.00537.2002

Lorenz, R. G. and R. D. Newberry 2004.
Isolated lymphoid follicles can function as sites for induction of mucosal immune responses.
Ann N Y Acad Sci 1029: 44-57. 10.1196/annals.1309.006

Lorenz, R. G., D. D. Chaplin, K. G. McDonald, J. S. McDonough and R. D. Newberry 2003.
Isolated lymphoid follicle formation is inducible and dependent upon lymphotoxin-sufficient B lymphocytes, lymphotoxin beta receptor, and TNF receptor I function.
J Immunol 170: 5475-5482. 10.4049/jimmunol.170.11.5475

Gurtner, G. J., R. D. Newberry, S. R. Schloemann, K. G. McDonald and W. F. Stenson 2003.
Inhibition of indoleamine 2,3-dioxygenase augments trinitrobenzene sulfonic acid colitis in mice. Gastroenterology 125: 1762-1773. 10.1053/j.gastro.2003.08.031

Newberry, R. D., J. S. McDonough, K. G. McDonald and R. G. Lorenz 2002.
Postgestational lymphotoxin/lymphotoxin beta receptor interactions are essential for the presence of intestinal B lymphocytes.
J Immunol 168: 4988-4997. 10.4049/jimmunol.168.10.4988

Newberry, R. D., J. S. McDonough, W. F. Stenson and R. G. Lorenz 2001.
Spontaneous and continuous cyclooxygenase-2-dependent prostaglandin E2 production by stromal cells in the murine small intestine lamina propria: directing the tone of the intestinal immune response.
J Immunol 166: 4465-4472. 10.4049/jimmunol.166.7.4465

Newberry, R. D., W. F. Stenson and R. G. Lorenz 1999. Cyclooxygenase-2-dependent arachidonic acid metabolites are essential modulators of the intestinal immune response to dietary antigen.
Nat Med 5: 900-906. 10.1038/11341

Takeda, J., A. Cheng, F. Mauxion, C. A. Nelson, R. D. Newberry, W. C. Sha, R. Sen and D. Y. Loh 1990.
Functional analysis of the murine T-cell receptor beta enhancer and characteristics of its DNA-binding proteins. Mol Cell Biol 10: 5027-5035. 10.1128/mcb.10.10.5027-5035.1990

Sha, W. C., C. A. Nelson, R. D. Newberry, J. K. Pullen, L. R. Pease, J. H. Russell and D. Y. Loh 1990.
Positive selection of transgenic receptor-bearing thymocytes by Kb antigen is altered by Kb mutations that involve peptide binding.
Proc Natl Acad Sci U S A 87: 6186-6190. 10.1073/pnas.87.16.6186

Loh, D. Y., W. C. Sha, C. A. Nelson, R. D. Newberry, D. M. Kranz and J. H. Russell 1989.
Positive and negative selection of T lymphocytes.
Cold Spring Harb Symp Quant Biol 54 Pt 1: 147-151. 10.1101/sqb.1989.054.01.018

Sha, W. C., C. A. Nelson, R. D. Newberry, D. M. Kranz, J. H. Russell and D. Y. Loh 1988.
Positive and negative selection of an antigen receptor on T cells in transgenic mice.
Nature 336: 73-76. 10.1038/336073a0

Sha, W. C., C. A. Nelson, R. D. Newberry, D. M. Kranz, J. H. Russell and D. Y. Loh 1988.
Selective expression of an antigen receptor on CD8-bearing T lymphocytes in transgenic mice.
Nature 335: 271-274. 10.1038/335271a0