Soumita Das

Title(s)Associate Adjunct Professor, Pathology
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #
La Jolla CA 92093
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    Collapse Overview 
    Collapse Overview
    My lab is interested in understanding the three-way crosstalk and interactions between gastro-intestinal epithelial cells, immune cells and microbe (beneficial as well as pathogenic). The host gut barrier is disrupted after encountering microbes/toxin/ microbial products linked to inflammation and chronic diseases. Inflammation following infection also leads to DNA damage, which predisposes the epithelium to neoplastic transformation and cancer progression. Our recently developed gut organoid/Gut-on-a-chip model with epithelial cells, immune cells and microbes will be utilized to investigate mechanisms for gastro-intestinal inflammatory diseases, both oncogenic and non-oncogenic. The model will be useful for the identification of new diagnostic and therapeutic targets, identification of beneficial vs harmful microbes and nutritional components and to screen efficacy of novel barrier-protective drugs to combat inflammation-linked diseases. The core expertise of the lab are biochemistry, molecular biology, cell biology, microbial pathogenesis and mucosal immunology.

    Collapse Research 
    Collapse Research Activities and Funding
    Macrophage Polarization in Response to Infections and Inflammation
    NIH R01AI155696Sep 22, 2020 - Aug 31, 2025
    Role: Co-Principal Investigator
    The host-microbe-metformin interplay in the aged gut
    NIH R56AG069689Sep 15, 2020 - Aug 31, 2021
    Role: Principal Investigator
    Precision therapeutics of inflammatory bowel disease guided by Boolean logic
    NIH UG3TR003355Aug 28, 2020 - Jul 31, 2023
    Role: Co-Principal Investigator
    Network-Based Novel Therapeutics in Colorectal Cancers
    NIH UG3TR002968Sep 11, 2019 - Jul 31, 2022
    Role: Co-Principal Investigator
    Transforming Crohn’s disease Therapeutics: Where precise and predictable network-based targets are personalized through Phase ‘0’ human trials
    Crohn’s Disease Project Grant (The Helmsley Charitable Trust and Foundation) Jan 1, 2019 - Dec 31, 2022
    Role: Co-Principal Investigator
    Modeling the Diabetic Gut: how microbes fuel metabolic disorders
    DiaComp Pilot & Feasibility award, NIH/NIDDK Oct 1, 2018 - Sep 30, 2019
    Role: Principal Investigator
    Stem-cell based approaches to develop gut barrier-protective therapies in IBD
    The Takeda-Sanford Innovation Alliance Sep 1, 2018 - Oct 1, 2020
    Role: Co-PI
    Innate responses following infection with enteric microbes
    NIH/NIDDK R01DK107585Sep 1, 2016 - Aug 31, 2023
    Role: Principal Investigator
    Engulfment of enteric bacteria and the consequences for intestinal inflammation
    NIH R56DK099275Sep 1, 2014 - Aug 31, 2016
    Role: Principal Investigator
    Targeting the Gut Barrier to Cure Inflammatory Bowel Diseases
    NIH/NCATS
    Role: PI

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. The crosstalk between microbial sensors ELMO1 and NOD2 shape intestinal immune responses. Virulence. 2023 Jan 24; 2171690. Sharma A, Achi SC, Ibeawuchi SR, Anandachar MS, Gementera H, Chaudhury U, Usmani F, Vega K, Sayed IM, Das S. PMID: 36694274.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    2. Regulation of DNA damage response by trimeric G-proteins. iScience. 2023 Feb 17; 26(2):105973. Abd El-Hafeez AA, Sun N, Chakraborty A, Ear J, Roy S, Chamarthi P, Rajapakse N, Das S, Luker KE, Hazra TK, Luker GD, Ghosh P. PMID: 36756378; PMCID: PMC9900518.
      View in: PubMed   Mentions:
    3. Publisher Correction: An Artificial Intelligence-guided signature reveals the shared host immune response in MIS-C and Kawasaki disease. Nat Commun. 2022 Aug 11; 13(1):4729. Ghosh P, Katkar GD, Shimizu C, Kim J, Khandelwal S, Tremoulet AH, Kanegaye JT, Pediatric Emergency Medicine Kawasaki Disease Research Group, Bocchini J, Das S, Burns JC, Sahoo D. PMID: 35953486; PMCID: PMC9372045.
      View in: PubMed   Mentions:    Fields:    
    4. COVID-19 lung disease shares driver AT2 cytopathic features with Idiopathic pulmonary fibrosis. EBioMedicine. 2022 Aug; 82:104185. Sinha S, Castillo V, Espinoza CR, Tindle C, Fonseca AG, Dan JM, Katkar GD, Das S, Sahoo D, Ghosh P. PMID: 35870428; PMCID: PMC9297827.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    5. Role of ELMO1 in inflammation and cancer-clinical implications. Cell Oncol (Dordr). 2022 Aug; 45(4):505-525. Tocci S, Ibeawuchi SR, Das S, Sayed IM. PMID: 35668246.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    6. An Artificial Intelligence-guided signature reveals the shared host immune response in MIS-C and Kawasaki disease. Nat Commun. 2022 05 16; 13(1):2687. Ghosh P, Katkar GD, Shimizu C, Kim J, Khandelwal S, Tremoulet AH, Kanegaye JT, Pediatric Emergency Medicine Kawasaki Disease Research Group, Bocchini J, Das S, Burns JC, Sahoo D. PMID: 35577777; PMCID: PMC9110726.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCellsPHPublic Health
    7. The WxxxE proteins in microbial pathogenesis. Crit Rev Microbiol. 2023 Mar; 49(2):197-213. Achi SC, Karimilangi S, Lie D, Sayed IM, Das S. PMID: 35287539; PMCID: PMC9737147.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    8. Artificial intelligence-rationalized balanced PPARa/? dual agonism resets dysregulated macrophage processes in inflammatory bowel disease. Commun Biol. 2022 03 14; 5(1):231. Katkar GD, Sayed IM, Anandachar MS, Castillo V, Vidales E, Toobian D, Usmani F, Sawires JR, Leriche G, Yang J, Sandborn WJ, Das S, Sahoo D, Ghosh P. PMID: 35288651; PMCID: PMC8921270.
      View in: PubMed   Mentions: 4  Translation:HumansAnimalsCells
    9. Diarrhoeal pathogenesis in Salmonella infection may result from an imbalance in intestinal epithelial differentiation through reduced Notch signalling. J Physiol. 2022 04; 600(8):1851-1865. Quach A, Jayaratne RR, Lee BJ, Ibeawuchi SR, Lim E, Das S, Barrett KE. PMID: 35100665.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    10. RNA binding protein DDX5 directs tuft cell specification and function to regulate microbial repertoire and disease susceptibility in the intestine. Gut. 2022 09; 71(9):1790-1802. Long T, Abbasi N, Hernandez JE, Li Y, Sayed IM, Ma S, Iemolo A, Yee BA, Yeo GW, Telese F, Ghosh P, Das S, Huang WJM. PMID: 34853057; PMCID: PMC9156727.
      View in: PubMed   Mentions: 2     Fields:    Translation:Animals
    11. Inflammatory phenotype modulation in the respiratory tract and systemic circulation of e-cigarette users: a pilot study. Am J Physiol Lung Cell Mol Physiol. 2021 12 01; 321(6):L1134-L1146. Sayed IM, Masso-Silva JA, Mittal A, Patel A, Lin E, Moshensky A, Shin J, Bojanowski CM, Das S, Akuthota P, Crotty Alexander LE. PMID: 34704852; PMCID: PMC8715026.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    12. SPT6 loss permits the transdifferentiation of keratinocytes into an intestinal fate that resembles Barrett's metaplasia. iScience. 2021 Oct 22; 24(10):103121. Vo DT, Fuller MR, Tindle C, Anandachar MS, Das S, Sahoo D, Ghosh P. PMID: 34622168; PMCID: PMC8481972.
      View in: PubMed   Mentions: 1  
    13. Adult stem cell-derived complete lung organoid models emulate lung disease in COVID-19. Elife. 2021 08 13; 10. Tindle C, Fuller M, Fonseca A, Taheri S, Ibeawuchi SR, Beutler N, Katkar GD, Claire A, Castillo V, Hernandez M, Russo H, Duran J, Crotty Alexander LE, Tipps A, Lin G, Thistlethwaite PA, Chattopadhyay R, Rogers TF, Sahoo D, Ghosh P, Das S. PMID: 34463615; PMCID: PMC8463074.
      View in: PubMed   Mentions: 22     Fields:    Translation:HumansCells
    14. Functional assays with human patient-derived enteroid monolayers to assess the human gut barrier. STAR Protoc. 2021 09 17; 2(3):100680. Sayed IM, Tindle C, Fonseca AG, Ghosh P, Das S. PMID: 34337445; PMCID: PMC8313751.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    15. Artificial intelligence guided discovery of a barrier-protective therapy in inflammatory bowel disease. Nat Commun. 2021 07 12; 12(1):4246. Sahoo D, Swanson L, Sayed IM, Katkar GD, Ibeawuchi SR, Mittal Y, Pranadinata RF, Tindle C, Fuller M, Stec DL, Chang JT, Sandborn WJ, Das S, Ghosh P. PMID: 34253728; PMCID: PMC8275683.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansAnimals
    16. AI-guided discovery of the invariant host response to viral pandemics. EBioMedicine. 2021 Jun; 68:103390. Sahoo D, Katkar GD, Khandelwal S, Behroozikhah M, Claire A, Castillo V, Tindle C, Fuller M, Taheri S, Rogers TF, Beutler N, Ramirez SI, Rawlings SA, Pretorius V, Smith DM, Burton DR, Alexander LEC, Duran J, Crotty S, Dan JM, Das S, Ghosh P. PMID: 34127431; PMCID: PMC8193764.
      View in: PubMed   Mentions: 19     Fields:    Translation:HumansAnimalsPHPublic Health
    17. Immunosuppression of Macrophages Underlies the Cardioprotective Effects of CST (Catestatin). Hypertension. 2021 05 05; 77(5):1670-1682. Ying W, Tang K, Avolio E, Schilling JM, Pasqua T, Liu MA, Cheng H, Gao H, Zhang J, Mahata S, Ko MS, Bandyopadhyay G, Das S, Roth DM, Sahoo D, Webster NJG, Sheikh F, Ghosh G, Patel HH, Ghosh P, van den Bogaart G, Mahata SK. PMID: 33826401; PMCID: PMC8116433.
      View in: PubMed   Mentions: 14     Fields:    Translation:AnimalsCells
    18. Modeling colorectal cancers using multidimensional organoids. Adv Cancer Res. 2021; 151:345-383. Sayed IM, El-Hafeez AAA, Maity PP, Das S, Ghosh P. PMID: 34148617; PMCID: PMC8221168.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    19. SPT6 promotes epidermal differentiation and blockade of an intestinal-like phenotype through control of transcriptional elongation. Nat Commun. 2021 02 04; 12(1):784. Li J, Xu X, Tiwari M, Chen Y, Fuller M, Bansal V, Tamayo P, Das S, Ghosh P, Sen GL. PMID: 33542242; PMCID: PMC7862286.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    20. Apurinic/Apyrimidinic Endonuclease 1 Restricts the Internalization of Bacteria Into Human Intestinal Epithelial Cells Through the Inhibition of Rac1. Front Immunol. 2020; 11:553994. den Hartog G, Butcher LD, Ablack AL, Pace LA, Ablack JNG, Xiong R, Das S, Stappenbeck TS, Eckmann L, Ernst PB, Crowe SE. PMID: 33603730; PMCID: PMC7884313.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    21. E-cigarettes compromise the gut barrier and trigger inflammation. iScience. 2021 Feb 19; 24(2):102035. Sharma A, Lee J, Fonseca AG, Moshensky A, Kothari T, Sayed IM, Ibeawuchi SR, Pranadinata RF, Ear J, Sahoo D, Crotty-Alexander LE, Ghosh P, Das S. PMID: 33537654; PMCID: PMC7841355.
      View in: PubMed   Mentions: 14  
    22. The interaction of enteric bacterial effectors with the host engulfment pathway control innate immune responses. Gut Microbes. 2021 Jan-Dec; 13(1):1991776. Sayed IM, Ibeawuchi SR, Lie D, Anandachar MS, Pranadinata R, Raffatellu M, Das S. PMID: 34719317; PMCID: PMC8565811.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansAnimalsCells
    23. TLR4 signaling and macrophage inflammatory responses are dampened by GIV/Girdin. Proc Natl Acad Sci U S A. 2020 10 27; 117(43):26895-26906. Swanson L, Katkar GD, Tam J, Pranadinata RF, Chareddy Y, Coates J, Anandachar MS, Castillo V, Olson J, Nizet V, Kufareva I, Das S, Ghosh P. PMID: 33055214; PMCID: PMC7604444.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansAnimalsCells
    24. The DNA Glycosylase NEIL2 Suppresses Fusobacterium-Infection-Induced Inflammation and DNA Damage in Colonic Epithelial Cells. Cells. 2020 08 28; 9(9). Sayed IM, Chakraborty A, Abd El-Hafeez AA, Sharma A, Sahan AZ, Huang WJM, Sahoo D, Ghosh P, Hazra TK, Das S. PMID: 32872214; PMCID: PMC7565382.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimalsCells
    25. DDX5 promotes oncogene C3 and FABP1 expressions and drives intestinal inflammation and tumorigenesis. Life Sci Alliance. 2020 10; 3(10). Abbasi N, Long T, Li Y, Yee BA, Cho BS, Hernandez JE, Ma E, Patel PR, Sahoo D, Sayed IM, Varki N, Das S, Ghosh P, Yeo GW, Huang WJM. PMID: 32817263; PMCID: PMC7441524.
      View in: PubMed   Mentions: 7     Fields:    Translation:AnimalsCells
    26. Potentiation of calcium-activated chloride secretion and barrier dysfunction may underlie EGF receptor tyrosine kinase inhibitor-induced diarrhea. Physiol Rep. 2020 07; 8(13):e14490. Kim Y, Quach A, Das S, Barrett KE. PMID: 32652816; PMCID: PMC7354088.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    27. Helicobacter pylori infection downregulates the DNA glycosylase NEIL2, resulting in increased genome damage and inflammation in gastric epithelial cells. J Biol Chem. 2020 08 07; 295(32):11082-11098. Sayed IM, Sahan AZ, Venkova T, Chakraborty A, Mukhopadhyay D, Bimczok D, Beswick EJ, Reyes VE, Pinchuk I, Sahoo D, Ghosh P, Hazra TK, Das S. PMID: 32518160; PMCID: PMC7415988.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimalsCells
    28. Congenital Tufting Enteropathy-Associated Mutant of Epithelial Cell Adhesion Molecule Activates the Unfolded Protein Response in a Murine Model of the Disease. Cells. 2020 04 11; 9(4). Das B, Okamoto K, Rabalais J, Marchelletta RR, Barrett KE, Das S, Niwa M, Sivagnanam M. PMID: 32290509; PMCID: PMC7226999.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    29. Computational Approach to Identifying Universal Macrophage Biomarkers. Front Physiol. 2020; 11:275. Dang D, Taheri S, Das S, Ghosh P, Prince LS, Sahoo D. PMID: 32322218; PMCID: PMC7156600.
      View in: PubMed   Mentions: 9  
    30. Host engulfment pathway controls inflammation in inflammatory bowel disease. FEBS J. 2020 09; 287(18):3967-3988. Sayed IM, Suarez K, Lim E, Singh S, Pereira M, Ibeawuchi SR, Katkar G, Dunkel Y, Mittal Y, Chattopadhyay R, Guma M, Boland BS, Dulai PS, Sandborn WJ, Ghosh P, Das S. PMID: 32003126; PMCID: PMC7390677.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansAnimalsCells
    31. The stress polarity signaling (SPS) pathway serves as a marker and a target in the leaky gut barrier: implications in aging and cancer. Life Sci Alliance. 2020 03; 3(3). Ghosh P, Swanson L, Sayed IM, Mittal Y, Lim BB, Ibeawuchi SR, Foretz M, Viollet B, Sahoo D, Das S. PMID: 32041849; PMCID: PMC7012149.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansAnimalsCells
    32. Enteroids expressing a disease-associated mutant of EpCAM are a model for congenital tufting enteropathy. Am J Physiol Gastrointest Liver Physiol. 2019 11 01; 317(5):G580-G591. Das B, Okamoto K, Rabalais J, Kozan PA, Marchelletta RR, McGeough MD, Durali N, Go M, Barrett KE, Das S, Sivagnanam M. PMID: 31433211; PMCID: PMC6879886.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    33. Dysregulation of Intestinal Epithelial Cell RIPK Pathways Promotes Chronic Inflammation in the IBD Gut. Front Immunol. 2019; 10:1094. Garcia-Carbonell R, Yao SJ, Das S, Guma M. PMID: 31164887; PMCID: PMC6536010.
      View in: PubMed   Mentions: 22     Fields:    Translation:HumansAnimalsCells
    34. Elevated A20 promotes TNF-induced and RIPK1-dependent intestinal epithelial cell death. Proc Natl Acad Sci U S A. 2018 09 25; 115(39):E9192-E9200. Garcia-Carbonell R, Wong J, Kim JY, Close LA, Boland BS, Wong TL, Harris PA, Ho SB, Das S, Ernst PB, Sasik R, Sandborn WJ, Bertin J, Gough PJ, Chang JT, Kelliher M, Boone D, Guma M, Karin M. PMID: 30209212; PMCID: PMC6166836.
      View in: PubMed   Mentions: 37     Fields:    Translation:HumansAnimalsCells
    35. The Pivotal Role of DNA Repair in Infection Mediated-Inflammation and Cancer. Front Microbiol. 2018; 9:663. Sahan AZ, Hazra TK, Das S. PMID: 29696001; PMCID: PMC5904280.
      View in: PubMed   Mentions: 16  
    36. The Role of Ion Transporters in the Pathophysiology of Infectious Diarrhea. Cell Mol Gastroenterol Hepatol. 2018; 6(1):33-45. Das S, Jayaratne R, Barrett KE. PMID: 29928670; PMCID: PMC6007821.
      View in: PubMed   Mentions: 33     Fields:    
    37. Neutralization of cholera toxin with nanoparticle decoys for treatment of cholera. PLoS Negl Trop Dis. 2018 02; 12(2):e0006266. Das S, Angsantikul P, Le C, Bao D, Miyamoto Y, Gao W, Zhang L, Eckmann L. PMID: 29470490; PMCID: PMC5839590.
      View in: PubMed   Mentions: 12     Fields:    Translation:AnimalsCells
    38. ELMO1 Regulates Autophagy Induction and Bacterial Clearance During Enteric Infection. J Infect Dis. 2017 12 19; 216(12):1655-1666. Sarkar A, Tindle C, Pranadinata RF, Reed S, Eckmann L, Stappenbeck TS, Ernst PB, Das S. PMID: 29029244; PMCID: PMC5853658.
      View in: PubMed   Mentions: 18     Fields:    Translation:AnimalsCells
    39. Regulation of Rac1 and Reactive Oxygen Species Production in Response to Infection of Gastrointestinal Epithelia. PLoS Pathog. 2016 Jan; 12(1):e1005382. den Hartog G, Chattopadhyay R, Ablack A, Hall EH, Butcher LD, Bhattacharyya A, Eckmann L, Harris PR, Das S, Ernst PB, Crowe SE. PMID: 26761793; PMCID: PMC4711900.
      View in: PubMed   Mentions: 29     Fields:    Translation:HumansCells
    40. The role of C1q in recognition of apoptotic epithelial cells and inflammatory cytokine production by phagocytes during Helicobacter pylori infection. J Inflamm (Lond). 2015; 12:51. Fox S, Ryan KA, Berger AH, Petro K, Das S, Crowe SE, Ernst PB. PMID: 26357509; PMCID: PMC4563842.
      View in: PubMed   Mentions: 5  
    41. ELMO1 has an essential role in the internalization of Salmonella Typhimurium into enteric macrophages that impacts disease outcome. Cell Mol Gastroenterol Hepatol. 2015 Apr 01; 1(3):311-324. Das S, Sarkar A, Choudhury SS, Owen KA, Castillo V, Fox S, Eckmann L, Elliott MR, Casanova JE, Ernst PB. PMID: 26878033; PMCID: PMC4747049.
      View in: PubMed   Mentions: 15     Fields:    
    42. Brain angiogenesis inhibitor 1 is expressed by gastric phagocytes during infection with Helicobacter pylori and mediates the recognition and engulfment of human apoptotic gastric epithelial cells. FASEB J. 2014 May; 28(5):2214-24. Das S, Sarkar A, Ryan KA, Fox S, Berger AH, Juncadella IJ, Bimczok D, Smythies LE, Harris PR, Ravichandran KS, Crowe SE, Smith PD, Ernst PB. PMID: 24509909; PMCID: PMC3986834.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansCells
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