Gut Group Goals:

  • To assemble basic and clinical scientists focused on cancers in GI/Liver to exchange ideas and reagents, provide feedback and form collaborations that will result in joint publications and grants
  • To expose trainees to research in GI/Liver Cancer Biology
  • To develop a biorepository to analyze GI/Liver disorders

Role of the microbiome in gut inflammation; short chain fatty acids and metabolism, Inflammation in the tumor microenvironment; GI cancers which include cholangiocarcinoma, NAFLD and hepatocelllular CA, H. pylori and gastric cancer; biomarkers of early onset colon cancers; MDSCs and immunotherapy resisistance in PDAC, gut stem cell biology; developing optical tools for diagnosis and treatment and diagnosis in GI cancers.

  • Ding L, Li Q, Chakrabarti J, Munoz A, Faure-Kumar E, Ocadiz-Ruiz R, Razumilava N, Zhang G, Hayes MH, Sontz RA, Mendoza ZE, Mahurkar S, Greenson JK, Perez-Perez G, Hanh NTH, Zavros Y, Samuelson LC, Iliopoulos D, Merchant JL. MiR130b from Schlafen4+-MDSCs stimulates epithelial proliferation and correlates with preneoplastic changes prior to gastric cancer. Gut, Jan 24, 2020, doi: 10.1136/gutjnl-2019-318817 NIHMS1565878.  
  • Ding L, Sontz EA, Saqui-Salces M, Merchant JL.  Interleukin-1β Suppresses Gastrin via Primary Cilia and Induces Antral Hyperplasia. Cell Mol Gastroenterol Hepatol. 2021 Jan 10;11(5):1251-1266. doi: 10.1016/j.jcmgh.2020.12.008.
  • Farshidpour M, Ahmed M, Junna S, Merchant JL. Myeloid-derived suppressor cells in gastrointestinal cancers: A systemic review. World J Gastrointest Oncol. 2021 Jan 15;13(1):1-11. doi: 10.4251/wjgo.v13.i1.1.
  • Holokai L, Chakrabarti J, Lundy J, Croagh D, Adhikary P, Richards SS, Woodson C, Steele N, Kuester R, Scott A, Khreiss M, Frankel T, Merchant J, Jenkins BJ, Wang J, Shroff RT, Ahmad SA, Zavros Y. Murine- and Human-Derived Autologous Organoid/Immune Cell Co-Cultures as Pre-Clinical Models of Pancreatic Ductal Adenocarcinoma.
    Cancers (Basel). 2020 Dec 17;12(12):3816. doi: 10.3390/cancers12123816.
  • Mishima Y, Oka A, Liu B, Herzog JW, Eun CS, Fan TJ, Bulik-Sullivan E, Carroll IM, Hansen JJ, Chen L, Wilson JE, Fisher NC, Ting JP, Nochi T, Wahl A, Garcia JV, Karp CL, Sartor RB.Microbiota maintain colonic homeostasis by activating TLR2/MyD88/PI3K signaling in IL-10-producing regulatory B cells. J Clin Invest. 2019 Jun 18;129(9):3702-3716. doi: 10.1172/JCI93820
  • Breast tumor stiffness instructs bone metastasis via maintenance of mechanical conditioning.
    Watson AW, Grant AD, Parker SS, Hill S, Whalen MB, Chakrabarti J, Harman MW, Roman MR, Forte BL, Gowan CC, Castro-Portuguez R, Stolze LK, Franck C, Cusanovich DA, Zavros YPadi M, Romanoski CE, Mouneimne G.
    Cell Rep. 2021 Jun 29;35(13):109293. doi: 10.1016/j.celrep.2021.109293.
    PMID: 34192535 Free article.


  • Hedgehog transcriptional effector GLI mediates mTOR-Induced PD-L1 expression in gastric cancer organoids.
    Koh V, Chakrabarti J, Torvund M, Steele N, Hawkins JA, Ito Y, Wang J, Helmrath MA, Merchant JLAhmed SA, Shabbir A, Yan So JB, Yong WP, Zavros Y.
    Cancer Lett. 2021 Jun 12;518:59-71. doi: 10.1016/j.canlet.2021.06.007. Online ahead of print.
    PMID: 34126195
  • Modeling pancreatic pathophysiology using genome editing of adult stem cell-derived and induced pluripotent stem cell (iPSC)-derived organoids.
    Hirshorn ST, Steele N, Zavros Y.
    Am J Physiol Gastrointest Liver Physiol. 2021 Jun 1;320(6):G1142-G1150. doi: 10.1152/ajpgi.00329.2020. Epub 2021 Mar 24.
    PMID: 33759566
  • Murine- and Human-Derived Autologous Organoid/Immune Cell Co-Cultures as Pre-Clinical Models of Pancreatic Ductal Adenocarcinoma.
    Holokai L, Chakrabarti J, Lundy J, Croagh D, Adhikary P, Richards SS, Woodson C, Steele N, Kuester R, Scott A, Khreiss M, Frankel T, Merchant J, Jenkins BJ, Wang J, Shroff RT, Ahmad SA, Zavros Y.
    Cancers (Basel). 2020 Dec 17;12(12):3816. doi: 10.3390/cancers12123816.
    PMID: 33348809 Free PMC article.
  • Gastric Metabolomics Detects Helicobacter pylori Correlated Loss of Numerous Metabolites in Both the Corpus and Antrum.
    Keilberg D, Steele N, Fan S, Yang C, Zavros Y, Ottemann KM.
    Infect Immun. 2021 Jan 19;89(2):e00690-20. doi: 10.1128/IAI.00690-20. Print 2021 Jan 19.
    PMID: 33168589 Free PMC article.
  • Human Gastrointestinal Organoid Models for Studying Microbial Disease and Cancer.
    Chakrabarti J, Dua-Awereh MB, Holokai L, Zavros Y.
    Curr Top Microbiol Immunol. 2021;430:55-75. doi: 10.1007/82_2020_223.
    PMID: 32889597 Review.
  • H. pylori infection confers resistance to apoptosis via Brd4-dependent BIRC3 eRNA synthesis.
    Chen Y, Sheppard D, Dong X, Hu X, Chen M, Chen R, Chakrabarti J, Zavros Y, Peek RM, Chen LF.
    Cell Death Dis. 2020 Aug 21;11(8):667. doi: 10.1038/s41419-020-02894-z.
    PMID: 32820150 Free PMC article.
  • Role of metaplasia during gastric regeneration.
    Teal E, Dua-Awereh M, Hirshorn ST, Zavros Y.
    Am J Physiol Cell Physiol. 2020 Dec 1;319(6):C947-C954. doi: 10.1152/ajpcell.00415.2019. Epub 2020 Aug 5.
    PMID: 32755448 Review.
  • Generation and use of gastric organoids for the study of Helicobacter pylori pathogenesis.
    Chakrabarti J, Zavros Y.
    Methods Cell Biol. 2020;159:23-46. doi: 10.1016/bs.mcb.2020.04.011. Epub 2020 Jun 5.
    PMID: 32586445