Publications of Interest

Additional Publications (193)

Blutt, S.E., Broughman, J.R., Zou, W., Zeng, X.L., Karandikar, U.C., In, J., Zachos, N.C., Kovbasnjuk, O., Donowitz, M.(, & Estes. M.K. (2017). Gastrointestinal microphysiological systems. Exp Biol Med (Maywood), 1535370217710638. PMID: 28534432. [PubMed Abstract]

Peck, B.C., Mah, A.T., Pitman, W.A., Ding, S., Lund, P.K.(, & Sethupathy, P. (2017). Functional Transcriptomics in Diverse Intestinal Epithelial Cell Types Reveals Robust MicroRNA Sensitivity in Intestinal Stem Cells to Microbial Status. J Biol Chem, 292(7), 2586-600. PMCID: PMC5314158. [PubMed Abstract]

Vernetti, L., Gough, A., Baetz, N., Blutt, S., Broughman, J.R., Brown, J.A., Foulke-Abel, J., Hasan, N., In, J., Kelly, E., Kovbasnjuk, O., Repper, J., Senutovitch, N., Stabb, J., Yeung, C., Zachos, N.C., Donowitz, M., , Estes. M.K., Himmelfarb, J., Truskey, G., Wikswo, J.P., & Taylor, D.L. (2017). Corrigendum: Functional Coupling of Human Microphysiology Systems: Intestine, Liver, Kidney Proximal Tubule, Blood-Brain Barrier and Skeletal Muscle. Sci Rep, 7, 44517. PMCID: PMC5353746. [PubMed Abstract]

Saxena, K., Simon, L.M., Zeng, X.L., Blutt, S.E., Crawford, S.E., Sastri, N.P., Karandikar, U.C., Ajami, N.J., Zachos, N.C., Kovbasnjuk, O., Donowitz, M.(, Conner, M.E., Shaw, C.A., & Estes. M.K. (2017). A paradox of transcriptional and functional innate interferon responses of human intestinal enteroids to enteric virus infection. Proc Natl Acad Sci U S A, 114(4), E570-E9. PMCID: PMC5278484. [PubMed Abstract]

Xu, L., Cheng, D., Huang, Z., Ding, S., Zhang, W., Tan, H., Shi, H., Chen, R., Zou, Y., Wang, T.C.(, Yang, X., & Ge, J. (2017). Histamine promotes the differentiation of macrophages from CD11b+ myeloid cells and formation of foam cells through a Stat6-dependent pathway. Atherosclerosis, 263, 42-52. PMID: 28600950. [PubMed Abstract]

Zou, W.Y., Blutt, S.E., Crawford, S.E., Ettayebi, K., Zeng, X.L., Saxena, K., Ramani, S., Karandikar, U.C., Zachos, N.C., & Estes. M.K. (2017). Human Intestinal Enteroids: New Models to Study Gastrointestinal Virus Infections. Methods Mol Biol. PMID: 28361480. [PubMed Abstract]

Yuan, G.C., Cai, L., Elowitz, M., Enver, T., Fan, G., Guo, G., Irizarry, R., Kharchenko, P., Kim, J., Orkin, S., Quackenbush, J., Saadatpour, A., Schroeder, T., Shivdasani, R., & Tirosh, I. (2017). Challenges and emerging directions in single-cell analysis. Genome Biol, 18(1), 84. PMCID: PMC5421338. [PubMed Abstract]

Noel, G., Baetz, N.W., Staab, J.F., Donowitz, M., Kovbasnjuk, O., Pasetti, M.F., & Zachos, N.C. (2017). A primary human macrophage-enteroid co-culture model to investigate mucosal gut physiology and host-pathogen interactions. Sci Rep, 7, 45270. PMCID: PMC5366908. [PubMed Abstract]

Arora, N., Imran Alsous, J., Guggenheim, J.W., Mak, M., Munera, J., Wells, J.M., Kamm, R.D., Asada, H.H., Shvartsman, S.Y., & Griffith, L.G. (2017). A process engineering approach to increase organoid yield. Development, 144(6), 1128-36. PMCID: PMC5358111. [PubMed Abstract]

Fendler, W., Malachowska, B., Meghani, K., Konstantinopoulos, P.A., Guha, C., Singh, V.K., & Chowdhury, D. (2017). Evolutionarily conserved serum microRNAs predict radiation-induced fatality in nonhuman primates. Sci Transl Med, 9(379). PMCID: PMC5441546. [PubMed Abstract]

Rouch, J.D., & Dunn, J.C. (2017). New insights and interventions for short bowel syndrome. Curr Pediatr Rep, 5(1), 1-5. PMCID: PMC5373550. [PubMed Abstract]

Laucirica, D.R., Triantis, V., Schoemaker, R., Estes, M.K., & Ramani, S. (2017). Milk Oligosaccharides Inhibit Human Rotavirus Infectivity in MA104 Cells. J Nutr. PMID: 28637685. [PubMed Abstract]

Kim, G.A., Spence, J.R., & Takayama, S. (2017). Bioengineering for intestinal organoid cultures. Curr Opin Biotechnol, 47, 51-8. PMID: 28646678. [PubMed Abstract]

Jin, G., Sakitani, K., Wang, H., Jin, Y., Dubeykovskiy, A., Worthley, D.L., Tailor, Y., & Wang, T.C. (2017). The G-protein coupled receptor 56, expressed in colonic stem and cancer cells, binds progastrin to promote proliferation and carcinogenesis. Oncotarget, 8(25), 40606-19. PMID: 28380450. [PubMed Abstract]

Greer, S.U., Nadauld, L.D., Lau, B.T., Chen, J., Wood-Bouwens, C., Ford, J.M., Kuo, C.J., & Ji, H.P. (2017). Linked read sequencing resolves complex genomic rearrangements in gastric cancer metastases. Genome Med, 9(1), 57. PMCID: PMC5477353. [PubMed Abstract]

Sarwer, D.B., Dilks, R.J., Spitzer, J.C., Berkowitz, R.I., Wadden, T.A., Moore, R.H., Chittams, J.L., Brandt, M.L., Chen, M.K., Courcoulas, A.P., Harmon, C.M., Helmrath, M.A., Michalsky, M.P., Xanthakos, S.A., Zeller, M.H., Jenkins, T.M., & Inge, T.H. (2017). Changes in Dietary Intake and Eating Behavior in Adolescents After Bariatric Surgery: an Ancillary Study to the Teen-LABS Consortium. Obes Surg. PMID: 28625002. [PubMed Abstract]

Marcinkowski, E.F., Ottesen, R., Niland, J.C., & Vito, C. (2017). Acceptance of adjuvant chemotherapy recommendations in early-stage hormone-positive breast cancer. J Surg Res, 214, 79-85. PMID: 28624063. [PubMed Abstract]

Zheng, X., Goodwin, A.F., Tian, H., Jheon, A.H., & Klein, O.D. (2017). Ras Signaling Regulates Stem Cells and Amelogenesis in the Mouse Incisor. J Dent Res, 22034517717255. PMID: 28644741. [PubMed Abstract]

Lal, D.R., Gadepalli, S.K., Downard, C.D., Ostlie, D.J., Minneci, P.C., Swedler, R.M., Chelius, T.H., Cassidy, L., Rapp, C.T., Billmire, D., Bruch, S., Burns, R.C., Deans, K.J., Fallat, M.E., Fraser, J.D., Grabowski, J., Hebel, F., Helmrath, M.A., Hirschl, R.B., Kabre, R., Kohler, J., Landman, M.P., Leys, C.M., Mak, G.Z., Raque, J., Rymeski, B., Saito, J.M., St Peter, S.D., von Allmen, D., Warner, B.W., & Sato, T.T. (2017). Challenging surgical dogma in the management of proximal esophageal atresia with distal tracheoesophageal fistula: Outcomes from the Midwest Pediatric Surgery Consortium. J Pediatr Surg. PMID: 28599967. [PubMed Abstract]

Xu, B., Li, H., Perry, J.M., Singh, V.P., Unruh, J., Yu, Z., Zakari, M., McDowell, W., Li, L., & Gerton, J.L. (2017). Ribosomal DNA copy number loss and sequence variation in cancer. PLoS Genet, 13(6), e1006771. PMCID: PMC5480814. [PubMed Abstract]

Shanker, S., Hu, L., Ramani, S., Atmar, R.L., Estes, M.K., & Venkataram Prasad, B.V. (2017). Structural features of glycan recognition among viral pathogens. Curr Opin Struct Biol, 44, 211-8. PMID: 28591681. [PubMed Abstract]

Spechler, S.J., Merchant, J.L., Wang, T.C., Chandrasoma, P., Fox, J.G., Genta, R.M., Goldenring, J.R., Hayakawa, Y., Kuipers, E.J., Lund, P.K., McKeon, F., Mills, J.C., Odze, R.D., Peek, R.M., Jr., Pham, T., Que, J., Rustgi, A.K., Shaheen, N.J., Shivdasani, R.A., Souza, R.F., Storz, P., Todisco, A., Wang, D.H., & Wright, N.A. (2017). A Summary of the 2016 James W. Freston Conference of the American Gastroenterological Association: Intestinal Metaplasia in the Esophagus and Stomach: Origins, Differences, Similarities and Significance. Gastroenterology, 153(1), e6-e13. PMID: 28583825. [PubMed Abstract]

Brodin, N.P., Velcich, A., Guha, C., & Tome, W.A. (2017). A Model for Precise and Uniform Pelvic- and Limb-Sparing Abdominal Irradiation to Study the Radiation-Induced Gastrointestinal Syndrome in Mice Using Small Animal Irradiation Systems. Dose Response, 15(1), 1559325816685798. PMCID: PMC5298432. [PubMed Abstract]

Laczko, D., Wang, F., Johnson, F.B., Jhala, N., Rosztoczy, A., Ginsberg, G.G., Falk, G.W., Rustgi, A.K., & Lynch, J.P. (2017). Modeling Esophagitis Using Human Three-Dimensional Organotypic Culture System. Am J Pathol, 187(8), 1787-99. PMID: 28627413. [PubMed Abstract]

Hu, J.K., Du, W., Shelton, S.J., Oldham, M.C., DiPersio, C.M., & Klein, O.D. (2017). An FAK-YAP-mTOR Signaling Axis Regulates Stem Cell-Based Tissue Renewal in Mice. Cell Stem Cell. PMID: 28457749. [PubMed Abstract]
Dye, B.R., Dedhia, P.H., Miller, A.J., Nagy, M.S., White, E.S., Shea, L.D., & Spence, J.R. (2016). A bioengineered niche promotes in vivo engraftment and maturation of pluripotent stem cell derived human lung organoids. Elife, 5. PMCID: PMC5089859. [PubMed Abstract]

Koledova, Z., Zhang, X., Streuli, C., Clarke, R.B., Klein, O.D., Werb, Z., & Lu, P. (2016). SPRY1 regulates mammary epithelial morphogenesis by modulating EGFR-dependent stromal paracrine signaling and ECM remodeling. Proc Natl Acad Sci U S A, 113(39), E5731-40. PMCID: PMC5047180. [PubMed Abstract]

Sharir, A., & Klein, O.D. (2016). Watching a deep dive: Live imaging provides lessons about tooth invagination. J Cell Biol, 214(6), 645-7. PMID: 27621361. [PubMed Abstract]

Meyer, L.A., Cronin, A.M., Sun, C.C., Bixel, K., Bookman, M.A., Cristea, M.C., Griggs, J.J., Levenback, C.F., Burger, R.A., Mantia-Smaldone, G., Matulonis, U.A., Niland, J.C., O'Malley, D.M., & Wright, A.A. (2016). Use and Effectiveness of Neoadjuvant Chemotherapy for Treatment of Ovarian Cancer. J Clin Oncol. PMID: 27601552. [PubMed Abstract]

von Burstin, J., Bachhuber, F., Paul, M., Schmid, R.M., & Rustgi, A.K. (2016). The TALE homeodomain transcription factor MEIS1 activates the pro-metastatic melanoma cell adhesion molecule Mcam to promote migration of pancreatic cancer cells. Mol Carcinog. PMID: 27583552. [PubMed Abstract]

Larsen, B.M., Marty-Santos, L., Newman, M., Lukacs, D.T., Spence, J.R., & Wellik, D.M. (2016). Hox6 genes modulate in vitro differentiation of mESCs to insulin-producing cells. In Vitro Cell Dev Biol Anim, 52(9), 974-82. PMID: 27444630. [PubMed Abstract]

Kulkarni, S., Koller, A., Mani, K.M., Wen, R., Alfieri, A., Saha, S., Wang, J., Patel, P., Bandeira, N., Guha, C., & Chen, E.I. (2016). Identifying Urinary and Serum Exosome Biomarkers for Radiation Exposure Using a Data Dependent Acquisition and SWATH-MS Combined Workflow. Int J Radiat Oncol Biol Phys, 96(3), 566-77. PMCID: PMC5042854. [PubMed Abstract]

Jadhav, U., & Shivdasani, R.A. (2016). Natural Selection, Crypt Fitness, and Pol III Dependency in the Intestine. Cell Mol Gastroenterol Hepatol, 2(6), 714-5. PMCID: PMCPMC5247341. [PubMed Abstract]

Ariyachet, C., Tovaglieri, A., Xiang, G., Lu, J., Shah, M.S., Richmond, C.A., Verbeke, C., Melton, D.A., Stanger, B.Z., Mooney, D., Shivdasani, R.A., Mahony, S., Xia, Q., Breault, D.T., & Zhou, Q. (2016). Reprogrammed Stomach Tissue as a Renewable Source of Functional beta Cells for Blood Glucose Regulation. Cell Stem Cell, 18(3), 410-21. PMCID: PMC4779391. [PubMed Abstract]

Gifford, G.B., Demitrack, E.S., Keeley, T.M., Tam, A., La Cunza, N., Dedhia, P.H., Spence, J.R., Simeone, D.M., Saotome, I., Louvi, A., Siebel, C.W., & Samuelson, L.C. (2016). Notch1 and Notch2 receptors regulate mouse and human gastric antral epithelial cell homoeostasis. Gut. PMID: 26933171. [PubMed Abstract]

Foulke-Abel, J., In, J., Yin, J., Zachos, N.C., Kovbasnjuk, O., Estes, M.K., de Jonge, H., & Donowitz, M. (2016). Human Enteroids as a Model of Upper Small Intestinal Ion Transport Physiology and Pathophysiology. Gastroenterology, 150(3), 638-49 e8. PMCID: PMC4766025. [PubMed Abstract]

Kim, T.H., & Shivdasani, R.A. (2016). Stomach development, stem cells and disease. Development, 143(4), 554-65. PMCID: PMCPMC4760317. [PubMed Abstract]

Dubeykovskaya, Z., Si, Y., Chen, X., Worthley, D.L., Renz, B.W., Urbanska, A.M., Hayakawa, Y., Xu, T., Westphalen, C.B., Dubeykovskiy, A., Chen, D., Friedman, R.A., Asfaha, S., Nagar, K., Tailor, Y., Muthupalani, S., Fox, J.G., Kitajewski, J., & Wang, T.C. (2016). Neural innervation stimulates splenic TFF2 to arrest myeloid cell expansion and cancer. Nat Commun, 7, 10517. PMCID: PMC4742920. [PubMed Abstract]

Hayakawa, Y., Chang, W., Jin, G., & Wang, T.C. (2016). Gastrin and upper GI cancers. Curr Opin Pharmacol, 31, 31-7. PMID: 27591354. [PubMed Abstract]

Allen, J.I., Wang, T.C., Cohen, W.S., & Shah, V.H. (2016). How to Succeed in Academic Gastroenterology. Gastroenterology. PMID: 27575822. [PubMed Abstract]

Sarkar, A., Huebner, A.J., Sulahian, R., Anselmo, A., Xu, X., Flattery, K., Desai, N., Sebastian, C., Yram, M.A., Arnold, K., Rivera, M., Mostoslavsky, R., Bronson, R., Bass, A.J., Sadreyev, R., Shivdasani, R.A., & Hochedlinger, K. (2016). Sox2 Suppresses Gastric Tumorigenesis in Mice. Cell Rep, 16(7), 1929-41. PMID: 27498859. [PubMed Abstract]

Lloyd, R.E., & Estes, M.K. (2016). Editorial overview: Viruses and cell metabolism. Curr Opin Virol, 19, vii-viii. PMID: 27619793. [PubMed Abstract]

Westphalen, C.B., Middelhoff, M., Quante, M., & Wang, T.C. (2016). Epithelial Dclk1+ cells are not neural crest derived. Stem Cell Investig, 3, 60. PMCID: PMC5104577. [PubMed Abstract]

Rabben, H.L., Zhao, C.M., Hayakawa, Y., Wang, T.C., & Chen, D. (2016). Vagotomy and Gastric Tumorigenesis. Curr Neuropharmacol, 14(8), 967-72. PMCID: PMC5333586. [PubMed Abstract]
Sulahian, R., Chen, J., Arany, Z., Jadhav, U., Peng, S., Rustgi, A.K.(, Bass, A.J., Srivastava, A., Hornick, J.L., & Shivdasani, R.A.(2015). SOX15 governs transcription in human stratified epithelia and a subset of esophageal adenocarcinomas. Cell Mol Gastroenterol Hepatol, 1(6), 598-609 e6. PMCID: PMC4620585. [PubMed Abstract]

San Roman, A.K., Tovaglieri, A., Breault, D.T., & Shivdasani, R.A.(2015). Distinct Processes and Transcriptional Targets Underlie CDX2 Requirements in Intestinal Stem Cells and Differentiated Villus Cells. Stem Cell Reports, 5(5), 673-81. PMCID: PMC4649135. [PubMed Abstract] Manieri, N.A., Mack, M.R., Himmelrich, M.D., Worthley, D.L., Hanson, E.M., Eckmann, L., Wang, T.C., & Stappenbeck, T.S. (2015). Mucosally transplanted mesenchymal stem cells stimulate intestinal healing by promoting angiogenesis. J Clin Invest, 125(9), 3606-18. PMCID: PMC4588308. [PubMed Abstract]

Finkbeiner, S.R., Freeman, J.J., Wieck, M.M., El-Nachef, W., Altheim, C.H., Tsai, Y.H., Huang, S., Dyal, R., White, E.S., Grikscheit, T.C., Teitelbaum, D.H., & Spence, J.R. (2015). Generation of tissue-engineered small intestine using embryonic stem cell-derived human intestinal organoids. Biol Open, 4(11), 1462-72. PMCID: PMC4728347. [PubMed Abstract]

Saxena, K.B., S. E.; Ettayebi, K.; Zeng, X. L.; Broughman, J. R.; Crawford, S. E.; Karandikar, U.; Sastri, N. P.; Conner, M. E.; Opekun, A.; Graham, D. Y.; Qureshi, W.; Sherman, V.; Foulke-Abel, J.; In, J.; Kovbasnjuk, O.; Zachos, N. C.; Donowitz, M.; Estes, M.K. (2015). Human Intestinal Enteroids: A New Model to Study Human Rotavirus Infection, Host Restriction and Pathophysiology. J Virol. PMID: 26446608. [PubMed Abstract]

Acharya, S.S., Fendler, W., Watson, J., Hamilton, A., Pan, Y., Gaudiano, E., Moskwa, P., Bhanja, P., Saha, S., Guha, C., Parmar, K., & Chowdhury, D. (2015). Serum microRNAs are early indicators of survival after radiation-induced hematopoietic injury. Sci Transl Med, 7(287), 287ra69. PMCID: PMC4686271. [PubMed Abstract]

McGrath, P.S., & Wells, J.M. (2015). SnapShot: GI tract development. Cell, 161(1), 176- e1. PMID: 25815994. [PubMed Abstract]

Mahe, M.M., Sundaram, N., Watson, C.L., Shroyer, N.F., & Helmrath, M.A. (2015). Establishment of human epithelial enteroids and colonoids from whole tissue and biopsy. J Vis Exp, (97). PMCID: PMC4401205. [PubMed Abstract]

Jayewickreme, C.D.; Shivdasani, R.A. (2015). Control of stomach smooth muscle development and intestinal rotation by transcription factor BARX1. Dev Biol. PMID: 26057579. [PubMed Abstract]

Shi, Z.C., C. I.; Labhart, P.; Zhao, Y.; Yang, J.; Mistretta, T. A.; Henning, S.J.; Maity, S. N.; Mori-Akiyama, Y. (2015). Context-specific role of SOX9 in NF-Y mediated gene regulation in colorectal cancer cells. Nucleic Acids Res. PMID: 26040697. [PubMed Abstract]

Atmar, R.L., Bernstein, D.I.; Lyon, G. M.; Treanor, J. J.; Al-Ibrahim, M. S.; Graham, D. Y.; Vinje, J.; Jiang, X.; Gregoricus, N.; Frenck, R. W.; Moe, C. L.; Chen, W. H.; Ferreira, J.; Barrett, J.; Opekun, A. R.; Estes, M.K..; Borkowski, A.; Baehner, F.; Goodwin, R.; Edmonds, A.; Mendelman, P. M. (2015). Serological Correlates of Protection against a GII.4 Norovirus. Clin Vaccine Immunol. PMID: 26041041. [PubMed Abstract]

Yusung, S.A., Martin, M.G. (2015). A Breath of Fresh AIRE Surrounds Paneth Cells and Defensins. Gastroenterology, 149(1), 22-5. PMID: 26021231. [PubMed Abstract]

Van Landeghem, L., Santoro, M.A., Mah, A.T., Krebs, A.E., Dehmer, J.J., McNaughton, K.K., Helmrath, M.A., Magness, S.T., & Lund, P.K. (2015). IGF1 stimulates crypt expansion via differential activation of 2 intestinal stem cell populations. FASEB J, 29(7), 2828-42. PMCID: PMC4478798. [PubMed Abstract]

Worthley, D.L., Churchill, M., Compton, J.T., Tailor, Y., Rao, M., Si, Y., Levin, D., Schwartz, M.G., Uygur, A., Hayakawa, Y., Gross, S., Renz, B.W., Setlik, W., Martinez, A.N., Chen, X., Nizami, S., Lee, H.G., Kang, H.P., Caldwell, J.M., Asfaha, S., Westphalen, C.B., Graham, T., Jin, G., Nagar, K., Wang, H., Kheirbek, M.A., Kolhe, A., Carpenter, J., Glaire, M., Nair, A., Renders, S., Manieri, N., Muthupalani, S., Fox, J.G., Reichert, M., Giraud, A.S., Schwabe, R.F., Pradere, J.P., Walton, K., Prakash, A., Gumucio, D., Rustgi, A.K., Stappenbeck, T.S., Friedman, R.A., Gershon, M.D., Sims, P., Grikscheit, T., Lee, F.Y., Karsenty, G., Mukherjee, S., & Wang, T.C. (2015). Gremlin 1 identifies a skeletal stem cell with bone, cartilage, and reticular stromal potential. Cell, 160(1-2), 269-84. PMCID: PMC4436082. [PubMed Abstract]

O. Broin, P. Vaitheesvaran, B., Saha, S., Hartil, K., Chen, E.I., Goldman, D., Fleming, W.H., Kurland, I.J., Guha, C., & Golden, A. (2015). Intestinal microbiota-derived metabolomic blood plasma markers for prior radiation injury. Int J Radiat Oncol Biol Phys, 91(2), 360-7. PMCID: PMC4312583. [PubMed Abstract]

Lindemans, C.A., Calafiore, M., Mertelsmann, A.M., O'Connor, M.H., Dudakov, J.A., Jenq, R.R., Velardi, E., Young, L.F., Smith, O.M., Lawrence, G., Ivanov, J.A., Fu, Y.Y., Takashima, S., Hua, G., Martin, M.L., O'Rourke, K.P., Lo, Y.H., Mokry, M., Romera-Hernandez, M., Cupedo, T., Dow, L., Nieuwenhuis, E.E., Shroyer, N.F., Liu, C., Kolesnick, R., van den Brink, M.R.M., & Hanash, A.M. (2015). Interleukin-22 promotes intestinal-stem-cell-mediated epithelial regeneration. Nature, 528(7583), 560-4. PMCID: PMC4720437. [PubMed Abstract]

Sailaja, B.S., He, X.C., & Li, L. (2015). Stem Cells Matter in Response to Fasting. Cell Rep, 13(11), 2325-6. PMID: 26705824. [PubMed Abstract]

Gross, S., Balderes, D., Liu, J., Asfaha, S., Gu, G., Wang, T.C., & Sussel, L. (2015). Nkx2.2 is expressed in a subset of enteroendocrine cells with expanded lineage potential. Am J Physiol Gastrointest Liver Physiol, 309(12), G975-87. PMCID: PMC4683302. [PubMed Abstract]

Hayakawa, Y., Ariyama, H., Stancikova, J., Sakitani, K., Asfaha, S., Renz, B.W., Dubeykovskaya, Z.A., Shibata, W., Wang, H., Westphalen, C.B., Chen, X., Takemoto, Y., Kim, W., Khurana, S.S., Tailor, Y., Nagar, K., Tomita, H., Hara, A., Sepulveda, A.R., Setlik, W., Gershon, M.D., Saha, S., Ding, L., Shen, Z., Fox, J.G., Friedman, R.A., Konieczny, S.F., Worthley, D.L., Korinek, V., & Wang, T.C. (2015). Mist1 Expressing Gastric Stem Cells Maintain the Normal and Neoplastic Gastric Epithelium and Are Supported by a Perivascular Stem Cell Niche. Cancer Cell, 28(6), 800-14. PMCID: PMC4684751. [PubMed Abstract]

Asfaha, S. (2015). Intestinal stem cells and inflammation. Curr Opin Pharmacol, 25, 62-6. PMID: 26654865. [PubMed Abstract]

Sureban, S.M.Q., D.; Houchen C.W. (2015). Regulation of miRNAs by agents targeting the tumor stem cell markers DCLK1, MSI1, LGR5, and BMI1. Curr Pharmacol Rep, 1(4), 217-22. PMCID: PMCPMC4562791. [PubMed Abstract]

Schumacher, M.A., Aihara, E., Feng, R., Engevik, A., Shroyer, N.F., Ottemann, K.M., Worrell, R.T., Montrose, M.H., Shivdasani, R.A., & Zavros, Y. (2015). The use of murine-derived fundic organoids in studies of gastric physiology. J Physiol, 593(8), 1809-27. PMCID: PMC4405744. [PubMed Abstract]

Chen, X.S., X.; Yue, W.; Chen, D.; Yu, J.; Yao, Z.; Zhang, L. (2015). Fibulin-5 inhibits Wnt/beta-catenin signaling in lung cancer. Oncotarget. PMID: 25909283. [PubMed Abstract]

Cantrell, M.A., Kuo, C.J. (2015). Organoid modeling for cancer precision medicine. Genome Med, 7(1), 32. PMCID: PMCPMC4377844. [PubMed Abstract]
Sulahian, R., Casey, F., Shen, J., Qian, Z.R., Shin, H., Ogino, S., Weir, B.A., Vazquez, F., Liu, X.S., Hahn, W.C., Bass, A.J., Chan, V., & Shivdasani, R.A.(2014). An integrative analysis reveals functional targets of GATA6 transcriptional regulation in gastric cancer. Oncogene, 33(49), 5637-48. PMCID: PMC4050037. [PubMed Abstract]

Magness, S.T.(, & Lund, P.K.( (2014). Impact of diet-induced obesity on intestinal stem cells: hyperproliferation but impaired intrinsic function that requires insulin/IGF1. Endocrinology, 155(9), 3302-14. PMCID: PMC4138564. [PubMed Abstract] Barker N 2014 Adult intestinal stem cells: critical drivers of epithelial homeostasis and regeneration. Nature reviews Molecular cell biology 15:19-33 [PubMed Abstract]

Chang P, Qu Y, Liu Y, Cui S, Zhu D, Wang H, Jin X 2013 Multi-therapeutic effects of human adipose-derived mesenchymal stem cells on radiation-induced intestinal injury. Cell death & disease 4:e685 [PubMed Abstract]

*Kinzel B, Pikiolek M, Orsini V, Sprunger J, Isken A, Zietzling S, Desplanches M, Dubost V, Breustedt D, Valdez R, Liu D, Theil D, Muller M, Dietrich B, Bouwmeester T, Ruffner H, Tchorz J 2014 Functional roles of Lgr4 and Lgr5 in embryonic gut, kidney and skin development in mice. Developmental biology [PubMed Abstract]

Kovalenko PL, Basson MD 2013 The correlation between the expression of differentiation markers in rat small intestinal mucosa and the transcript levels of schlafen 3. JAMA surgery 148:1013-1019 [PubMed Abstract]

Ong BA, Vega KJ, Houchen CW 2014 Intestinal stem cells and the colorectal cancer microenvironment. World journal of gastroenterology : WJG 20:1898-1909 [PubMed Abstract]

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Morris JF, Sul JY, Kim MS, Klein-Szanto AJ, Schochet T, Rustgi A, Eberwine JH. Elk-1 phosphorylated at threonine-417 is present in diverse cancers and correlates with differentiation grade of colonic adenocarcinoma. Hum Pathol 2012. [PubMed Abstract]

Nakanishi Y, Seno H, Fukuoka A, Ueo T, Yamaga Y, Maruno T, Nakanishi N, Kanda K, Komekado H, Kawada M, Isomura A, Kawada K, Sakai Y, Yanagita M, Kageyama R, Kawaguchi Y, Taketo MM, Yonehara S, Chiba T. Dclk1 distinguishes between tumor and normal stem cells in the intestine. Nat Genet 2012. [PubMed Abstract]

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Pierzchalska M, Grabacka M, Michalik M, Zyla K, Pierzchalski P. Prostaglandin E2 supports growth of chicken embryo intestinal organoids in Matrigel matrix. Biotechniques. May 2012;52(5):307-315. [PubMed Abstract]

Rothenberg ME, Nusse Y, Kalisky T, Lee JJ, Dalerba P, Scheeren F, Lobo N, Kulkarni S, Sim S, Qian D, Beachy PA, Pasricha PJ, Quake SR, Clarke MF. Identification of a Ckit+ Colonic Crypt Base Secretory Cell that Supports Lgr5+ Stem Cells in Mice. Gastroenterology 2012. [PubMed Abstract]

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Stringer EJ, Duluc I, Saandi T, Davidson I, Bialecka M, Sato T, Barker N, Clevers H, Pritchard CA, Winton DJ, Wright NA, Freund JN, Deschamps J, Beck F. Cdx2 determines the fate of postnatal intestinal endoderm. Development 2012;139(3):465-74. [PubMed Abstract]

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Van Landeghem L, Santoro MA, Krebs AE, Mah AT, Dehmer JJ, Gracz AD, Scull BP, McNaughton K, Magness ST, Lund PK. Activation of two distinct Sox9-EGFP expressing intestinal stem cell populations during crypt regeneration after irradiation. Am J Physiol Gastrointest Liver Physiol 2012. [PubMed Abstract]

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Dalerba P, Kalisky T, Sahoo D, Rajendran PS, Rothenberg ME, Leyrat AA, Sim S, Okamoto J, Johnston DM, Qian D, Zabala M, Bueno J, Neff NF, Wang J, Shelton AA, Visser B, Hisamori S, Shimono Y, van de Wetering M, Clevers H, Clarke MF, Quake SR. Single-cell dissection of transcriptional heterogeneity in human colon tumors. Nat Biotech 2011;29(12):1120-1127. [PubMed Abstract]

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Feng Y, Bommer GT, Zhao J, Green M, Sands E, Zhai Y, Brown K, Burberry A, Cho KR, Fearon ER. Mutant KRAS promotes hyperplasia and alters differentiation in the colon epithelium but does not expand the presumptive stem cell pool. Gastroenterology 2011;141(3):1003-1013 e1-10. [PubMed Abstract]

Gerbe F, van Es JH, Makrini L, Brulin B, Mellitzer G, Robine S, Romagnolo B, Shroyer NF, Bourgaux JF, Pignodel C, Clevers H, Jay P. Distinct ATOH1 and Neurog3 requirements define tuft cells as a new secretory cell type in the intestinal epithelium. J Cell Biol 2011;192(5):767-80. [PubMed Abstract]

Hamilton KE, Simmons JG, Ding S, Van Landeghem L, Lund PK. Cytokine-Induction of Tumor Necrosis Factor Receptor 2 (TNFR2) is Mediated by STAT3 in Colon Cancer Cells. Mol Cancer Res 2011. [PubMed Abstract]

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Kunii J, Takahashi K, Kasakura K, Tsuda M, Nakano K, Hosono A, Kaminogawa S. Commensal bacteria promote migration of mast cells into the intestine. Immunobiology 2011;216(6):692-7. [PubMed Abstract]

Merlos-Suarez A, Barriga FM, Jung P, Iglesias M, Cespedes MV, Rossell D, Sevillano M, Hernando-Momblona X, da Silva-Diz V, Munoz P, Clevers H, Sancho E, Mangues R, Batlle E. The Intestinal Stem Cell SignatureIdentifies Colorectal Cancer Stem Cells and Predicts Disease Relapse. Cell Stem Cell 2011. [PubMed Abstract]

Mongroo, P. S.; Noubissi, F. K.; Cuatrecasas, M.; Kalabis, J.; King, C. E.; Johnstone, C. N.; Bowser, M. J.; Castells, A.; Spiegelman, V. S.; Rustgi, A. K. IMP-1 displays cross-talk with K-Ras and modulates colon cancer cell survival through the novel proapoptotic protein CYFIP2. Cancer Res 71(6):2172-2182; 2011 [PubMed Abstract]

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Perry JM, He XC, Sugimura R, Grindley JC, Haug JS, Ding S, Li L. Cooperation between both Wnt/{beta}-catenin and PTEN/PI3K/Akt signaling promotes primitive hematopoietic stem cell self-renewal and expansion. Genes Dev 2011;25(18):1928-42. [PubMed Abstract]

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Powell AE, Anderson EC, Davies PS, Silk AD, Pelz C, Impey S, Wong MH. Fusion between Intestinal epithelial cells and macrophages in a cancer context results in nuclear reprogramming. Cancer Res 2011;71(4):1497-505. [PubMed Abstract]

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Qin HH, Dunn JC. Small Intestinal Submucosa Seeded with Intestinal Smooth Muscle Cells in a Rodent Jejunal Interposition Model. J Surg Res 2011. [PubMed Abstract]

Ramalingam S, Daughtridge GW, Johnston MJ, Gracz AD, Magness ST. Distinct Levels of Sox9 Expression Mark Colon Epithelial Stem Cells that Form Colonoids in Culture. Am J Physiol Gastrointest Liver Physiol 2011. [PubMed Abstract]

Reizel Y, Chapal-Ilani N, Adar R, Itzkovitz S, Elbaz J, Maruvka YE, Segev E, Shlush LI, Dekel N, Shapiro E. Colon stem cell and crypt dynamics exposed by cell lineage reconstruction. PLoS Genet 2011;7(7):e1002192. [PubMed Abstract]

Sainathan SK, Bishnupuri KS, Aden K, Luo Q, Houchen CW, Anant S, Dieckgraefe BK. Toll-like receptor-7 ligand imiquimod induces type I interferon and antimicrobial peptides to ameliorate dextran sodium sulfate-induced acute colitis. Inflamm Bowel Dis 2011. [PubMed Abstract]

Sakthianandeswaren A, Christie M, D'Andreti C, Tsui C, Jorissen RN, Li S, Fleming NI, Gibbs P, Lipton L, Malaterre J, Ramsay RG, Phesse TJ, Ernst M, Jeffery RE, Poulsom R, Leedham SJ, Segditsas S, Tomlinson IP, Bernhard OK, Simpson RJ, Walker F, Faux MC, Church N, Catimel B, Flanagan DJ, Vincan E, Sieber OM. PHLDA1 expression marks the putative epithelial stem cells and contributes to intestinal tumorigenesis. Cancer Res 2011;71(10):3709-19. [PubMed Abstract]

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Sei Y, Lu X, Liou A, Zhao X, Wank SA. A stem cell marker-expressing subset of enteroendocrine cells resides at the crypt base in the small intestine. Am J Physiol Gastrointest Liver Physiol 2011;300(2):G345-56. [PubMed Abstract]

Spence JR, Mayhew CN, Rankin SA, Kuhar MF, Vallance JE, Tolle K, Hoskins EE, Kalinichenko VV, Wells SI, Zorn AM, Shroyer NF, Wells JM. Directed differentiation of human pluripotent stem cells into intestinal tissue in vitro. Nature 2011;470(7332):105-9. [PubMed Abstract]

Speck KE, Garrison AP, Rigby RJ, von Allmen DC, Lund PK, Helmrath MA. Inflammation enhances resection-induced intestinal adaptive growth in IL-10 null mice. J Surg Res 2011;168(1):62-9. [PubMed Abstract]

Stark R, Zupekan T, Bondada S, Dunn JC. Restoration of mechanically lengthened jejunum into intestinal continuity in rats. J Pediatr Surg 2011;46(12):2321-6. [PubMed Abstract]

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Verzi, M.P.(, Shin, H., He, H.H., Sulahian, R., Meyer, C.A., Montgomery, R.K., Fleet, J.C., Brown, M., Liu, X.S., & Shivdasani, R.A.(2010). Differentiation-specific histone modifications reveal dynamic chromatin interactions and partners for the intestinal transcription factor CDX2. Dev Cell, 19(5), 713-26. PMCID: PMC3001591. [PubMed Abstract]

Chia LA, Kuo CJ. The intestinal stem cell. Prog Mol Biol Transl Sci 2010;96:157-73. [PubMed Abstract]

Dudgeon C, Wang P, Sun X, Peng R, Sun Q, Yu J, Zhang L. PUMA induction by FoxO3a mediates the anticancer activities of the broad-range kinase inhibitor UCN-01. Mol Cancer Ther 2010;9(11):2893-902. [PubMed Abstract]

Gracz AD, Ramalingam S, Magness ST. Sox9 expression marks a subset of CD24-expressing small intestine epithelial stem cells that form organoids in vitro. Am J Physiol Gastrointest Liver Physiol. May 2010;298(5):G590-600. [PubMed Abstract]

Lan SY, Yu T, Xia ZS, Yuan YH, Shi L, Lin Y, Huang KH, Chen QK. Musashi 1-positive cells derived from mouse embryonic stem cells can differentiate into neural and intestinal epithelial-like cells in vivo. Cell Biol Int 2010;34(12):1171-80. [PubMed Abstract]

Leen JL, Izzo A, Upadhyay C, Rowland KJ, Dube PE, Gu S, Heximer SP, Rhodes CJ, Storm DR, Lund PK, Brubaker PL. Mechanism of Action of Glucagon-Like Peptide-2 to Increase IGF-I mRNA in Intestinal Subepithelial Fibroblasts. Endocrinology 2010. [PubMed Abstract]

Montgomery RK, Carlone DL, Richmond CA, Farilla L, Kranendonk ME, Henderson DE, Baffour-Awuah NY, Ambruzs DM, Fogli LK, Algra S, Breault DT. Mouse telomerase reverse transcriptase (mTert) expression marks slowly cycling intestinal stem cells. Proc Natl Acad Sci U S A 2010. [PubMed Abstract]

Pinchuk IV, Mifflin RC, Saada JI, Powell DW. Intestinal mesenchymal cells. Curr Gastroenterol Rep 2010;12(5):310-8. [PubMed Abstract]

Rezza A, Skah S, Roche C, Nadjar J, Samarut J, Plateroti M. The overexpression of the putative gut stem cell marker Musashi-1 induces tumorigenesis through Wnt and Notch activation. J Cell Sci 2010;123(Pt 19):3256-65. [PubMed Abstract]

Runck LA, Kramer M, Ciraolo G, Lewis AG, Guasch G. Identification of epithelial label-retaining cells at the transition between the anal canal and the rectum in mice. Cell Cycle 2010;9(15):3039-45. [PubMed Abstract]

Schrader S, Notara M, Tuft SJ, Beaconsfield M, Geerling G, Daniels JT. Simulation of an in vitro niche environment that preserves conjunctival progenitor cells. Regen Med 2010;5(6):877-89. [PubMed Abstract]

Stairs DB, Kong J, Lynch JP. Cdx genes, inflammation, and the pathogenesis of intestinal metaplasia. Prog Mol Biol Transl Sci 2010;96:231-70. [PubMed Abstract]

Sugimura R, Li L. Noncanonical Wnt signaling in vertebrate development, stem cells, and diseases. Birth Defects Res C Embryo Today 2010;90(4):243-56. [PubMed Abstract]

Sun G, Hasebe T, Fujimoto K, Lu R, Fu L, Matsuda H, Kajita M, Ishizuya-Oka A, Shi YB. Spatio-temporal expression profile of stem cell-associated gene LGR5 in the intestine during thyroid hormone-dependent metamorphosis in Xenopus laevis. PLoS One 2010;5(10):e13605. [PubMed Abstract]

Spence JR, Mayhew CN, Rankin SA, Kuhar MF, Vallance JE, Tolle K, Hoskins EE, Kalinichenko VV, Wells SI, Zorn AM, Shroyer NF, Wells JM. Directed differentiation of human pluripotent stem cells into intestinal tissue in vitro. Nature 2010. [PubMed Abstract]

Sun G, Hasebe T, Fujimoto K, Lu R, Fu L, Matsuda H, Kajita M, Ishizuya-Oka A, Shi YB. Spatio-temporal expression profile of stem cell-associated gene LGR5 in the intestine during thyroid hormone-dependent metamorphosis in Xenopus laevis. PLoS One 2010;5(10):e13605. [PubMed Abstract]

VanDussen KL, Samuelson LC. Mouse atonal homolog 1 directs intestinal progenitors to secretory cell rather than absorptive cell fate. Dev Biol 2010;346(2):215-23. [PubMed Abstract]

Wang, Z.; Matsudaira, P.; Gong, Z. STORM: a general model to determine the number and adaptive changes of epithelial stem cells in teleost, murine and human intestinal tracts. PLoS One 5(11):e14063; 2010. [PubMed Abstract]

Yu T, Chen QK, Gong Y, Xia ZS, Royal CR, Huang KH. Higher expression patterns of the intestinal stem cell markers Musashi-1 and hairy and enhancer of split 1 and their correspondence with proliferation patterns in the mouse jejunum. Med Sci Monit. Feb 2010;16(2):BR68-74. [PubMed Abstract]
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