Publications

Research Papers (2000-2006)

Goode Triona, O’Connell J, Ho Wen-Zhe, O’Sullivan GC, Collins JK, Douglas SD, Shanahan F.  Differential expression of neurokinin-1 receptor by human mucosal and peripheral blood cells.  Clinical & Diagnostic Laboratory Immunology 2000;7:371-376.

Fanning LJ, Levis J, Kenny-Walsh E, Wynne F, Shanahan F.  Viral persistence or clearance in hepatitis C (1b) infection: relationship to HLA class II in a homogenous population.  Hepatology 2000;31:1334-1337.

Goode T, O’Connell J, Anton P, Wong H, Reeve J, O’Sullivan GC, Collins JK, Shanahan F. Neurokinin-1 receptor expression in inflammatory bowel disease: Molecular quantitation and localisation. Gut 2000;47:387-396.

Fanning L, Kenny-Walsh E, Levis J, Choudhury KR, Sheehan M, Whelton M, Shanahan F. Natural fluctuations of hepatitis C viral load in a homogeneous patient population: a prospective study. Hepatology 2000;31:225-229.

Wang J, Fan X, Lindholm C, Bennett M, O’Connell J, Shanahan F, Brooks EG, Reyes VE, Ernst P. Helicobacter pylori modulates lymphoepithelial cell interactions leading to epithelial cell damage through Fas/Fas ligand interactions.  Infection and Immunity 2000;68:4303-4311.

O’Connell J, Bennett MW, Nally K, O’Sullivan GC, Collins JK, Shanahan F. Interferon-g sensitizes colonic epithelial cell lines to physiological and therapeutic inducers of colonocyte apoptosis. J Cell Physiol 2000;185:331-338.

Maguire D, O’Sullivan GC, McNamara B, Collins JK, and Shanahan F. Bone marrow micrometastases in patients with brain metastases from epithelial cell tumours. Quarterly Journal of Medicine QJM 2000;93:611-615.

Murphy J, O’Sullivan GC, Lee G, Madden M, Shanahan F, Collins JK, Talbot I. The inflammatory response within Dukes’ B colorectal cancers: implications for progression of micrometastases and patient survival. Am J Gastroenterology 2000;95:3607-3614.

Jabeen T, Cannon B, Hogan J, Crowley M, Devereux C, Fanning L, Kenny-Walsh E, Shanahan F, Whelton MJ. Pregnancy and pregnancy outcome in hepatitis C type 1b. Q J Med 2000;23:597-601.

Fanning LJ, Levis J, Kenny-Walsh E, Whelton M, O’Sullivan K, Shanahan F. HLA class II genes determine the natural variance of hepatitis C viral load. Hepatology 2001;33:224-230.

Levis J, Kenny-Walsh E, O’Sullivan K, Horgan M, Whelton M, Shanahan F, Fanning L. Strategy for the maximization of clinically relevant information from hepatitis C virus, RT-PCR quantification. J Clin Virology 2001;20:163-171.

Mullan B, Kenny-Walsh E, Collins JK, Shanahan F, Fanning LJ. Inferred hepatitis C virus quasispecies diversity is influenced by choice of DNA polymerase in RT-PCR.  Anal Biochem 2001;289:137-146.

Bennett MW, O’Connell J, Kelly J, O’Sullivan GC, Collins JK, Shanahan F. Fas ligand upregulation is an early event in colonic carcinogenesis. J Clin Path 2001;54:598-604.

Barry OP, Mullan B, Sheehan D, Kazanietz MG, Shanahan F, Collins JK, O’Sullivan GC.  Constitutive ERK1/2 Activation in Esophagogastric Rib Bone Marrow Micrometastatic Cells is MEK-independent. J Biol Chem 2001;276:15537-15546.

Waldron-Lynch F, Adams C, Amos C, Zhu DK, McDermott MF, Shanahan F, Molloy MG, O’Gary F. Tumour necrosis factor 5’ promoter single nucleotide polymorphisms influence susceptibility to rheumatoid arthritis (RA) in immunologically defined multiplex RA families. Genes and Immunity 2001;2:82-87.

Coffey JC, Bennett MW, Wang JH, O'Connell J, Neary P, Shanahan F, Redmond HP, Kirwan WO. Upregulation of Fas-Fas-L (CD95/CD95L)-mediated epithelial apoptosis--a putative role in pouchitis?  J Surg Res. 2001 Jun 1;98(1):27-32.

O’Mahony L, Feeney M, O’Halloran S, Murphy L, Kiely B, Fitzgibbon J, Lee G, O’Sullivan G, Shanahan F, Collins JK.  Probiotic impact on microbial flora, inflammation and tumour development in IL-10 knockout mice. Aliment Pharmacol Ther 2001;15:1219-1225.

Woods JA, Dunne C, Collins JK, Shanahan F, O’Brien, NM.  Genotoxicity of faecal water in a free-living Irish population.  Nutrition and Cancer 2002;42(1):62-69.

Fanning L, Loane J, Kenny-Walsh E, Sheehan M, Whelton M, Kirwan W, Collins  JK, Shanahan F. Tissue viral load variability in chronic hepatitis C.  Am J Gastroenterol. 2001 Dec;96(12):3384-9.

O’Leary C, Walsh CH, Wieneke P, O’Regan P, Buckley B, O’Halloran DJ, Ferriss JB, Quigley EMM, Annis P, Shanahan F, Cronin CC. Coeliac disease and autoimmune Addison’s disease: a clinical pitfall. Q J Med 2002; 95: 79-82.

Collins JK, Murphy L, Morrissey D, Dunne C, O’Mahony L, O’Sullivan E, Fitzgerald G, Kiely B, O’Sullivan GC, Daly C, Marteau P, Shanahan F. A randomised controlled trial of a probiotic Lactobacillus strain in healthy adults: assessment of its delivery, transit, and influence on microbial flora and enteric immunity. Microbial Ecology in Health and Disease 2002; 14:81-89.

O’Leary C, Wieneke P, Buckley S, O’Regan P, Cronin CC, Quigley EMM, Shanahan F. Celiac disease and irritable bowel syndrome. Am J Gastro 2002;97; 1463-1467. 

Von Wright A, Vilpponen-Salmela T, Pages Llopis M, Collins JK, Kiely B,  Shanahan F, Dunne C. The survival and colonic adhesion of Bifidobacterium longum infantis in patients with ulcerative colitis. International Dairy Journal 2002;12, 1-2:197-200.

Duffy M, O’Mahony L, Coffey JC, Collins JK, Shanahan F, Redmond HP, Kirwan WO. Sulfate-reducing bacteria colonize pouches formed for ulcerative colitis but not for adenomatous polyposis. Dis Colon Rectum 2002;45: 384-388.

Ryan P, Bennett MW, Aarons S, Lee G, Collins JK, O'Sullivan GC, O'Connell J, Shanahan F. PCR detection of mycobacterium paratuberculosis in Crohn's disease granulomas isolated by laser capture microdissection. Gut 2002;51:665-670.

Wynne F, Drummond F, O'Sullivan K, Daly M, Shanahan F, Molloy MG, Quane KA. Investigation of the Genetic Influence of the OPG, VDR (Fok1), and COLIA1 Sp1 Polymorphisms on BMD in the Irish Population.  Calcif Tissue Int. 2002 Jul;71(1):26-35.

Gaughran F, O'Neill E, Sham P, Daly RJ, Shanahan F. Soluble interleukin 2 receptor levels in families of people with schizophrenia. Schizophr Res. 2002 Aug 1;56(3):235-9. 

O'Leary C, Feighery C, Feighery A, Quane K, Shanahan F, Molloy M, Cronin CC. The prevalence of coeliac disease among female subjects having bone densitometry. Ir J Med Sci. 2002 Jul-Sep;171(3):145-7.

Kelly RG, Nally K, Shanahan F, O’Connell J.  Type I Insulin-like Growth Factor Receptor Expression on Colorectal Adenocarcinoma Cell Lines is Decreased in Response to the Chemopreventive Agent N-Acetyl-l-Cysteine.  Ann NY Acad Sci. 2002 Nov;973:555-558.

O’Brien D, O’Connor T, Shanahan F, O’Connell J.  Activation of the p38 MAPK and ERK ½  pathways is Required for Fas-Induced IL-8 Production in Colonic Epithelial Cells.  Ann NY Acad Sci. 2002 Nov;973:161-165.

Goode T, O’Connor T, Hopkins A, Moriarty D, O’Sullivan GC, Collins JK, O’Donoghue D, Baird A, O’Connell J, Shanahan F.  Neurokinin-1 receptor (NK-1R) expression is induced in human colonic epithelial cells by proinflammatory cytokines and mediates proliferation in response to substance P. J. Cellular Physiology 2003;197:30-41.

Bairead E, Harmon DL, Curtis AM, Kelly Y, O’Leary C, Gardner M, Leahy DT, Vaughan P, Keegan D, O’Morain C, O’Donoghue D, Shanahan F, Parfrey NA, Quane K.  Association of NOD2 with Crohn’s disease in a homogeneous Irish population. Eur J H Genetics 2003;11 (3):237-244.

Wynne F, Drummond FJ, Daly M, Brown M, Shanahan F, Mollow MG, Quane KA. Suggestive linkage of 2p22-25 and 11q12-13 with low bone mineral density at the lumbar spine in the Irish population. Calcif Tissue Int 2003;April 03 epub ahead of print

O’Leary C, McCarthy J, Humphries M, Shanahan F, Quigley E. The prophylactic use of a proton pump inhibitor before food and alcohol. Aliment Pharmacol Ther 2003; 17(5):683-686.

McCarthy J, O’Mahony L, O’Callaghan L, Sheil B, Vaughan EE, Fitzsimons N, Fitzgibbon J, O’Sullivan GC, Kiely B, Collins JK, Shanahan F.  Double blind, placebo controlled trial of two probiotic strains in interleukin 10 knockout mice and mechanistic link with cytokine balance.  Gut 2003; 52(7):975-980.

O’Connor, TM, O’Connell J, O’Brien DI, Bennett MW, Goode T, Burke L, Bredin CP, Shanahan F.  Upregulation of Neurokinin-1 Receptor Expression in the Lungs of Patients with Sarcoidosis.  J Clin Immunol 2003; 23(5):425-435.

Houston A, Waldron-Lynch FD, Bennett MW, Roche D, O’Sullivan GC, Shanahan F, O’Connell J.  Fas ligand expressed in colon cancer is not associated with increased apoptosis of tumor cells in vivo.  Int J Cancer 2003;107(2):209-214.

O'Brien MG, Collins CG, Collins JK, Shanahan F, O'Sullivan GC. Oral immune tolerance to tumor specific antigens may confer growth advantage to esophageal and gastric cancers. Dis Esophagus. 2003;16(3):218-23.

Houston A, Bennett MW, O'Sullivan GC, Shanahan F, O'Connell J. Fas ligand mediates immune privilege and not inflammation in human colon cancer, irrespective of TGF-beta expression.  Br J Cancer 2003 Oct 6;89(7):1345-1351.

Drummond FJ, Annis P, O'Sullivan K, Wynne F, Daly M, Shanahan F, Quane KA, Molloy MG. Screening for asymptomatic celiac disease among patients referred for bone densitometry measurement. Bone. 2003 Dec;33(6):970-4.

Bischoff SC, Schwengberg S, Lorentz A, Manns MP, Bektas H, Sann H, Levi-Schaffer F, Shanahan F, Schemann M. Substance P and other neuropeptides do not induce mediator release in isolated human intestinal mast cells. Neurogastroenterol Motil. 2004 Apr;16(2):185-93.

Sheil B, McCarthy J, O'Mahony L, Bennett MW, Ryan P, Fitzgibbon JJ, Kiely B, Collins JK, Shanahan F. Is the mucosal route of administration essential for probiotic function? Subcutaneous administration is associated with attenuation of murine colitis and arthritis. Gut. 2004 May;53(5):694-700.

Ryan P, McCarthy S, Kelly J, Collins JK, Dunne C, Grogan L, Breathnach O, Shanahan F, Carey PD, Walsh TN, O'Sullivan GC. Prevalence of bone marrow micrometastases in esophagogastric cancer patients with and without neoadjuvant chemoradiotherapy. J Surg Res. 2004 Mar;117(1):121-6.

Mullan B, Sheehy P, Shanahan F, Fanning L. Do Taq-generated RT-PCR products from RNA viruses accurately reflect viral genetic heterogeneity? J Viral Hepat. 2004 Mar;11(2):108-14.

Dunne C, Kelly P, O'Halloran S, Soden D, Bennett M, von Wright A, Vilpponen-Salmela T, Kiely B, O'Mahony L, Collins JK, O'Sullivan GC, Shanahan F. Mechanisms of adherence of a probiotic Lactobacillus strain during and after in vivo assessment in ulcerative colitis patients. Microbial Ecology in Health and Disease 2004;16:96-104.

Fanning LJ, Kenny-Walsh E, Shanahan F. Persistence of hepatitis C virus in a white population: Associations with human leukocyte antigen class 1. Hum Immunol. 2004 Jul;65(7):745-51.

Ryan P, Kelly R, Lee G, Collins JK, O'Sullivan GC, O'Connell J, Shanahan F. Bacterial DNA within granulomas of patients with Crohn's disease - detection by laser capture microdissection and PCR. Am J Gastroenterol   2004 Aug;99(8):1539-43.

Duggan P, O'Brien M, Kiely M, McCarthy J, Shanahan F, Cashman KD. Vitamin K status in patients with Crohn's disease and relationship to bone turnover. Am J Gastroenterol   2004 Nov;99(11):2178-85.

O'Leary C, Wieneke P, Healy M, Cronin C, O'Regan P, Shanahan F. Celiac disease and the transition from childhood to adulthood: A 28-year follow-up. Am J Gastroenterology 2004 Dec;99(12):2437-41.

Sheehy P, Scallan M, Kenny-Walsh E, Shanahan F, Fanning LJ. A strategy for obtaining near full-length HCV cDNA clones (assemblicons) by assembly PCR. J Virol Methods 2005;123:115-24.

Ryan AE, Shanahan F, O'Connell J, Houston AM. Addressing the "Fas counterattack" controversy: blocking fas ligand expression suppresses tumor immune evasion of colon cancer in vivo. Cancer Res 2005;65:9817-23.

O'Mahony L, McCarthy J, Kelly P, Hurley G, Luo F, Chen K, O'Sullivan GC, Kiely B, Collins JK, Shanahan F, Quigley EM. Lactobacillus and bifidobacterium in irritable bowel syndrome: symptom responses and relationship to cytokine profiles. Gastroenterology 2005;128:541-51.

McCarthy D, Duggan P, O'Brien M, Kiely M, McCarthy J, Shanahan F, Cashman KD. Seasonality of vitamin D status and bone turnover in patients with Crohn's disease. Aliment Pharmacol Ther 2005;21:1073-83.

Kelly P, Maguire PB, Bennett M, Fitzgerald DJ, Edwards RJ, Thiede B, Treumann A, Collins JK, O'Sullivan GC, Shanahan F, Dunne C. Correlation of probiotic Lactobacillus salivarius growth phase with its cell wall-associated proteome. FEMS Microbiol Lett 2005;252:153-9.

Itakura J, Nagayama K, Enomoto N, Hamano K, Sakamoto N, Fanning LJ, Kenny-Walsh E, Shanahan F, Watanabe M. Viral load change and sequential evolution of entire hepatitis C virus genome in Irish recipients of single source-contaminated anti-D immunoglobulin*. J Viral Hepat 2005;12:594-603.

Sheil B, Macsharry J, O'Callaghan L, O'Riordan A, Waters A, Morgan J, Collins JK, O'Mahony L, Shanahan F. Role of interleukin (IL-10) in probiotic-mediated immune modulation: an assessment in wild-type and IL-10 knock-out mice. Clin Exp Immunol 2006;144:273-80.

Ryan AE, Lane S, Shanahan F, O'Connell J, Houston A. Fas ligand expression in human and mouse cancer cell lines; a caveat on over-reliance on mRNA data. J Carcinog 2006;5:5.

O'Mahony L, O'Callaghan L, McCarthy J, Shilling D, Scully P, Sibartie S, Kavanagh E, Kirwan WO, Redmond HP, Collins JK, Shanahan F. Differential cytokine response from dendritic cells to commensal and pathogenic bacteria in different lymphoid compartments in humans. Am J Physiol Gastrointest Liver Physiol 2006;290:G839-45.

Gilman J, Shanahan F, Cashman KD. Determinants of vitamin D status in adult Crohn's disease patients, with particular emphasis on supplemental vitamin D use. Eur J Clin Nutr 2006.

Gilman J, Shanahan F, Cashman KD. Altered levels of biochemical indices of bone turnover and bone-related vitamins in patients with Crohn's disease and ulcerative colitis. Aliment Pharmacol Ther 2006;23:1007-16.

Drummond FJ, Mackrill JJ, O'Sullivan K, Daly M, Shanahan F, Molloy MG. CD38 is associated with premenopausal and postmenopausal bone mineral density and postmenopausal bone loss. J Bone Miner Metab 2006;24:28-35.

Dinan TG, Quigley EM, Ahmed SM, Scully P, O'Brien S, O'Mahony L, O'Mahony S, Shanahan F, Keeling PW. Hypothalamic-pituitary-gut axis dysregulation in irritable bowel syndrome: plasma cytokines as a potential biomarker? Gastroenterology 2006;130:304-11.

Claesson MJ, Li Y, Leahy S, Canchaya C, van Pijkeren JP, Cerdeno-Tarraga AM, Parkhill J, Flynn S, O'Sullivan G C, Collins JK, Higgins D, Shanahan F, Fitzgerald GF, van Sinderen D, O'Toole P W. From the Cover: Multireplicon genome architecture of Lactobacillus salivarius. Proc Natl Acad Sci U S A 2006;103:6718-23.

Busteed S, Bennett MW, Molloy C, Houston A, Stone MA, Shanahan F, Molloy MG, O'Connell J. Bcl-x(L) expression in vivo in rheumatoid synovium. Clin Rheumatol 2006.

Review Papers (2000-2006)

Shanahan F. Anti-TNF therapy in Crohn’s disease – A perspective. Infliximab is not the drug we have been waiting for! Inflammatory Bowel Diseases 2000; 6(2):137-139.

Shanahan F. Probiotics in inflammatory bowel disease: is there a scientific rationale? Inflammatory Bowel Disease 2000;6:107-1115.

O’Connor TM, O’Halloran DJ, Shanahan F. The stress response and the hypothalamic-pituitary-adrenal axis: from molecule to melancholia. QJM Quarterly Journal of Medicine 2000;93:323-333.

Fanning LJ and Shanahan F. The hepatitis C virus: master of diversity and challenging adversity. Medscape.com 2000 http://www.medscape.com/Medscape/gastro/journal/2000/v02/mgi6558.fann/mgi6558.fann-01.html

Maguire D, O’Sullivan GC, J. K. Collins, Shanahan F. Bone marrow micrometastases. Am J Gastroenterol 2000;95:1644-1651.

 O’Connell J, Bennett MW, Nally K, Houston A, O’Sullivan GC, Shanahan F. Altered mechanisms of apoptosis in colon cancer: Fas resistance and counterattack in the tumor-immune conflict. Ann NY Acad Sci 2000;910:178-195.

Kell MR, Winter DC, O’Sullivan GC, Shanahan F, Redmond HP. Biological behaviour and clinical significance of micrometastases. Br J Surgery 2000;87:1629-1639.

Cronin CC, Shanahan F. Why is coeliac disease so common in Ireland? Perspect Biol Med 2001;44:342-352.

Dunne C, O’Mahony L, Murphy L, Thornton G, Morrissey D, O’Halloran S, Feeney M, Flynn S, Fitzgerald G, Daly C, Kiely B, O’Sullivan GC, Shanahan F, Collins JK. In vitro selection criteria for probiotic bacteria of human origin: correlation with in vivo findings. Am J Clin Nutrition 2001;73 (suppl) (2 part 2):386S-392S.

Shanahan F. Inflammatory bowel disease: immunodiagnostics, immunotherapeutics and ecotherapeutics. Gastroenterology 2001; 120:622-635.

Dunne C, Shanahan F. Role of probiotics in the treatment of intestinal infections and inflammation. Current Opinion in Gastroenterology 2002;18:40-45.

Shanahan F. Crohn’s disease. Lancet 2002;359:62-69.

Mattila-Sandholm T, Blaut M, Daly C, De Vuyst L, Doré J, Gibson G, Goosens H, Knorr D, Lucas J, Lahteenmaki, Mercenier A, Saarela M, Shanahan F, de Vos WM. Food, GI-tract Functionality and Human Health Cluster: PROEUHEALTH. Microbial Ecology in Health and Disease 2002;14:65-74.

Shanahan F. Probiotics and inflammatory bowel disease: from fads and fantasy to facts and future. British Journal of Nutrition 2002;88:Suppl. 1, S5-S9.

O’Leary PF, Shanahan F. Food allergies. Curr Gastroenterol Rep. 2002 Oct;4(5):373-82.

Shanahan F. The host-microbe interface within the gut. Best Practice & Research Clinical Gastroenterology 2002;16(6); 915-931.

Cashman K, Shanahan F. Is nutrition an aetiological factor for IBD? Eur J Gastroenterol Hepatol 2003; 15(6):607-613.

Shanahan F.  Gut Flora in Gastrointestinal Disease.  Eur J Surg 2002;Suppl 587:47-52.

Shanahan F.  Probiotics:  A Perspective on Problems and Pitfalls.  Scand J Gastroenterol 2003; 38 Suppl 237:34-36.

Dunne C, Shanahan F.  Biotherapeutic Agents in the Treatment of Gastrointestinal Disorders.  Current Treatments in Infectious Diseases 2003; 5:183-188.

Marteau P, Seksik P, Shanahan F. Manipulation of the bacterial flora in inflammatory bowel disease. Best Pract Res Clin Gastroenterol 2003;17(1):47-61.

Shanahan F.  Colitis-associated cancer – time for new strategies.  Aliment Pharmacol Ther. 2003 Sep;18 Suppl 2:6-9.

Marteau P, Shanahan F.  Basic aspects and pharmacology of probiotics:  an overview of pharmacokinetics, mechanisms of action and side-effects.  Best Pract Res Clin Gastroenterol. 2003 Oct;17(5):725-40.

Shanahan F.  Probiotics in inflammatory bowel disease:  therapeutic rationale and role.  Adv Drug Delivery Rev 2004;56:809-818.

Shanahan F. Host-flora interactions in inflammatory bowel disease. Inflamm Bowel Dis. 2004 Feb;10 Suppl 1:S16-24.

Shanahan F.  Probiotics and the immune response: how much can we expect? J Pediatr Gastroenterol Nutr. 2004 Jun;39 Suppl 1:S748-9.

Renehan AG, O'Connell J, O'Halloran D, Shanahan F, Potten CS, O'Dwyer ST, Shalet SM. Acromegaly and colorectal cancer: a comprehensive review of epidemiology, biological mechanisms, and clinical implications. Horm Metab Res. 2003 Nov-Dec;35(11-12):712-25.

Renehan AG, O'Connell J, O'Halloran D, Shanahan F, Potten CS, O'Dwyer ST, Shalet SM.  Acromegaly and colorectal cancer: a comprehensive review of epidemiology, biological mechanisms, and clinical implications. Horm Metab Res. 2004 Jan;36(1):70-1.

Shanahan F, Bernstein CN. Antibiotics as a first-line therapy for Crohn's disease: is there any consensus? Inflamm Bowel Dis. 2004 May;10(3):324-6.

Shanahan F, Quera R. Debate - Surveillance for dysplasia is necessary for patients with ulcerative colitis - Con. Time to change the endoscopy and the microscopy. Am J Gastroenterology 2004 Sep;99(9):1633-6.

O'Connor TM, O'Connell J, O'Brien DI, Goode T, Bredin CP, Shanahan F.The role of substance P in inflammatory disease. J Cell Physiol. 2004 Nov;201(2):167-80.

O'Sullivan GC, Kelly P, O'Halloran S, Collins JK, Dunne C, Shanahan F. Probiotics: an emerging therapy. Current Pharmaceutical Design 2005;11(1):3-10

Shanahan F. Physiological Basis for Novel Drug Therapies Used to Treat the Inflammatory Bowel Diseases I. Pathophysiological basis and prospects for probiotic therapy in inflammatory bowel disease. Am J Physiol Gastrointest Liver Physiol. 2005 Mar;288(3):G417-21.

Gould G, Franken P, Hammer P, Mackey B, Shanahan F. Mycobacterium avium subsp. Paratuberculosis (MAP) and the food chain. Food Protection Trends 2005;25:268-297.

O'Brien DI, Nally K, Kelly RG, O'Connor TM, Shanahan F, O'Connell J. Targeting the Fas/Fas ligand pathway in cancer. Expert Opin Ther Targets. 2005 Oct;9(5):1031-44.

Ryan AE, Shanahan F, O'Connell J, Houston AM. Fas ligand promotes tumor immune evasion of colon cancer in vivo. Cell Cycle 2006;5(3):246-9

Invited Editorials and Perspectives

Shanahan F and Weinstein WM.  Extending the scope in celiac disease.  N Engl J Med 1988; 319: 782-783.

Shanahan F.  Disease modifying drugs for Crohn’s disease and ulcerative colitis.  Irish Medical Journal 1994;87:99-100.

Shanahan F.  Neutrophil autoantibodies in inflammatory bowel disease:  Are they important? Gastroenterology 1994;107:586-589.

Kelleher M, Shanahan F.  Psychoneuroimmunology and suicidal behaviour.  Irish Medical Journal 1995;88:18 & 23.

Shanahan F.  From basic advances to therapeutic strategies in ulcerative colitis.  Quarterly Journal of Medicine 1995;88:599-602.

Shanahan F.  Antibody markers and Crohn’s disease:  opportunity or overstatement.  Gut 1997;40:557-558.

Shanahan F.  A gut reaction.  Lymphoepthelial communication in the intestine.  Science 1997;275:1897-1898.

Cronin CC and Shanahan F.  Immunologic tests to monitor inflammatory bowel disease – have they delivered yet?  American Journal of Gastroenterology 1998;93:295-297.

Shanahan F.  Enteric neuropathophysiology and inflammatory bowel disease.  Neurogastroenterology & Motility 1998;10:185-187.

Shanahan F.  Intestinal graft-versus-host disease.  Gastroenterology 1998;115:220-222.

O’Connell J, Bennett MW, O’Sullivan GC, Collins JK, Shanahan F.  Fas counter-attack-the best form of tumor defense?  Nature Medicine 1999;5:267-268.

Shanahan F.  Immunologic and genetic links to Crohn’s disease.  Gut 2000;46:6-7.

Shanahan F.  Mechanisms of immunologic sensation of gastrointestinal contents. Am J Physiol: Gastrointestinal and Liver Physiology 2000;278:G191-G196.

Shanahan F, O’Sullivan GC, O’Leary C. Colorectal cancer: still a major killer despite progress on many fronts. QJM Quarterly Journal of Medicine 2000;93:131-134.

O’Sullivan GC, Shanahan F.  Esophagogastric cancer – time to change the paradigm.  Am J Gastroenterol 2000;95:2153-2154.

Shanahan F. Therapeutic manipulation of gut flora. Science 2000;289:1311-1312.

Shanahan F, McCarthy J. Functional foods and probiotics – time for gastroenterologists to embrace the concepts. Current Gastroenterology Reports 2000;2:345-346.

Shanahan F. Probiotics: Science or snake oil?  Clin Perspectives Gastroenterology 2001:4:47-50.

Shanahan F. Therapy update – probiotics in IBD. Gut 2001;48:609.

Shanahan F. Relation between colitis and colon cancer. Lancet 2001;357:246-247.

O’Connell J, Houston A, Bennett MW, O’Sullivan GC, Shanahan F. Immune privilege or inflammation? Insights into the Fas ligand enigma. Nature Medicine 2001;7:271-274.

Cronin CC, Shanahan F. Anaemia in patients with chronic inflammatory bowel disease  Am J Gastroenterology 2001;96:2296-2298.

Shanahan F. Uses of Error: Method and Bias. Lancet 2001;358:800.

Cronin CC, Shanahan F. Exploring the iceberg – the spectrum of celiac disease. Am J Gastroenterology 2003;98(3):518-520.

Shanahan F. Making microbes work for mankind-clever trick or a glimpse of the future for IBD treatment?  Gastroenterology. 2004 Aug;127(2):667-8.

Quera R, Shanahan F. Thromboembolism-an Important Manifestation of Inflammatory Bowel Disease. Am J Gastroenterol. 2004 Oct;99(10):1971-3.

Sibartie V, Shanahan F.  Clinical examination of the gastrointestinal system in the 21st century-is the emphasis right?  Am J Gastroenterol. 2004 Oct;99(10):1874-5.

Shanahan F, J Whorwell P.  IgG-Mediated Food Intolerance in Irritable Bowel Syndrome: A Real Phenomenon or an Epiphenomenom? Am J Gastroenterol. 2005 Jul;100(7):1558-9.

Shanahan F, O'Mahony J. The mycobacteria story in Crohn's disease. Am J Gastroenterol. 2005 Jul;100(7):1537-8.

Book Chapters

Shanahan F , Targan SR. Food allergy and adverse reactions: current status. In : Modern Concepts in Gastroenterology. Volume 1. edited by Thomson A.B.R., DaCosta L.R., and Watson W.C. Plenum Publishing Corporation, New York pp 317-333, 1986.

Shanahan F, Targan SR. Immunological mechanisms of liver injury In : Principles and Practice of Gastroenterology and Hepatology edited by Gitnick, G. Elsevier Science Publishing Co., Inc. New York, pp1069-1079, 1988.

Shanahan F, Targan S. Ulcerative colitis and Crohn's Disease In: Current Therapy in Allergy, Immunology, and Rheumatology , third edition, edited by Lichtenstein LM, and Fauci AS., B.C. Decker Inc. pp 242-251, 1988.

Shanahan F, Targan S. Role of natural effector cells in human gastrointestinal disease. In: Functions of the Natural Immune System, Edited by Reynolds C.W. and Wiltrout R.H., Plenum Publishing Corporation, New York. pp 455-473, 1989.

Shanahan F, Targan S. Inflammatory Bowel Disease. In: Textbook of Internal Medicine (1st edition) edited by W.N. Kelley et al., J.B. Lippincott Co., Philadelphia. pp 534-548, 1989.

Shanahan F, Targan S. The immunology of inflammatory bowel disease. In: Modern Concepts in Gastroenterology Volume 2, Plenum Publishing Corporation, New York pp 291-310, 1989.

Shanahan F, Targan S. Inflammatory Bowel Disease. In: Textbook of Internal Medicine (2nd edition) edited by W.N. Kelley et al., J.B. Lippincott Co., Philadelphia pp 489-502, 1992.

Shanahan F. Food allergy, eosinophilic gastroenteritis and systemic mastocytosis. In: Current Therapy in Gastroenterology and Liver Disease third edition, edited by T. M . Bayless, B.C. Decker Inc. pp 185-188, 1990.

Shanahan F, Targan S. Immunology of the liver and gastrointestinal tract: a perspective. In: Targan S and Shanahan F. (editors) Immunology and Immunopathology of the Liver and Gastrointestinal Tract, Igaku-Shoin, New York & Tokyo, pp1-4, 1990.

Duerr R, Shanahan F. Food Allergy In: Targan S and Shanahan F. (editors) Immunology and Immunopathology of the Liver and Gastrointestinal Tract, Igaku-Shoin, New York & Tokyo, pp 507-533,1990.

Kuritzkes R, Shanahan F. Steroids and Inflammatory Bowel Disease In: Inflammatory Bowel Disease: Diagnosis and Treatment edited by Gitnick G, Igaku-Shoin, New York &Tokyo, pp 299-321, 1991.

Targan S, Karp L, Shanahan F. Immunology of Inflammatory Bowel Disease. In: Inflammatory Bowel Disease: Diagnosis and Treatment edited by Gitnick G, Igaku-Shoin, New York & Tokyo, pp 43-52, 1991.

Shanahan F, Targan S. Immunologic Diseases: Gastrointestinal manifestations of immunodeficiency, hypersensitivity, and graft versus host disease. In: Textbook of Gastroenterology edited by Yamada T, Alpers D, Owyang C, Powell DW, Silverstein FE. JB Lippincott Company, Philadelphia pp 2157-71; 1991.

The above listed chapter was revised and published in 2nd Edition of Textbook of Gastroenterology edited by Yamada T, Alpers D, Owyang C, Powell DW, Silverstein FE. JB Lippincott Company, Philadelphia, 1994;2455-71.

The above listed chapter has been revised and extended and published in 3rd Edition of Textbook of Gastroenterology edited by Yamada T, Alpers D, Owyang C, Powell DW, Laine L.. JB Lippincott Company, Philadelphia, 1999;2547-2563.

Shanahan F, Targan S. Immunologic Diseases. In: Atlas of Gastroenterology edited by Yamada T, Alpers D, Owyang C, Powell DW, Silverstein FE. JB Lippincott Company, Philadelphia pp 404-409 1992.

The above listed chapter has been revised and extended and published in the 2nd Edition of Atlas of Gastroenterology, Yamada T et al (editors).

Targan S, Shanahan F. Immune-mediated tissue injury in inflammatory bowel disease. In: Current Topics in Gastroenterology and Hepatology edited by Tytgat GNJ, vanBlankenstein M. Thieme Medical Publishers Inc., Stuttgart and New York, 1990 pp 465-471.

Targan S, Deem R, Shanahan F. Immune-mediated cytotoxicity in inflammatory bowel disease. In: Trends in Inflammatory Bowel Disease Therapy. ed. CN. Kluwer Academic Publishers. 1990.

Shanahan F, Targan S. Mechanisms of tissue injury in inflammatory bowel disease. In: Inflammatory Bowel Disease edited by MacDermott RP and Stenson W. Elsevier pp 77-93, 1992.

Shanahan F, Anton P. Role of peptides in the regulation of the mucosal immune and inflammatory response. In: Gut peptides: Biochemistry and Physiology, edited by Walsh JH, Dockray GJ. Raven Press, New York 1994; 851-867.

Bernstein CN, Shanahan F. Role of antibiotics in management of inflammatory bowel disease. In: Targan S and Shanahan F. (editors) Inflammatory Bowel Disease: From Bench to Bedside. Williams & Wilkins, Baltimore 1994; 524-530.

Bernstein CN, Shanahan F. Immunomodulatory therapy of inflammatory bowel disease. In: Targan S and Shanahan F. (editors) Inflammatory Bowel Disease: From Bench to Bedside. Williams & Wilkins, Baltimore 1994; 503-523.

Shanahan F, Targan S. Mechanisms of tissue injury in inflammatory bowel disease. In: Targan S and Shanahan F. (editors) Inflammatory Bowel Disease: From Bench to Bedside. Williams & Wilkins, Baltimore 1994; 78-88.

Shanahan F, Targan S. Introduction: Inflammatory bowel disease from bench to bedside. In: Targan S and Shanahan F. (editors) Inflammatory Bowel Disease: From Bench to Bedside. Williams & Wilkins, Baltimore 1994; 2-4.

Shanahan F, O'Gorman P. Significance of antineutrophil cytoplasmic autoantibodies (ANCA) in IBD. In: Rachmilewitz D (editor) Inflammatory bowel diseases 1994. IV International symposium on inlfammatory bowel diseases. Falk symposium No. 72. Sept 6-8, 1993 Strasbourg, France. Kluwer Academic Publishers 1994; 32-40.

Shanahan F. The intestinal immune system. In: Johnson LR, Alpers D, Christensen J, Jacobson E, Walsh JH (editors), Physiology of the Gastrointestinal Tract 3rd edition. Raven Press, New York 1994 (3rd ed); 643-684.

Shanahan F, O'Sullivan G, Collins J. Immunosuppressive agents in inflammatory bowel disease. In: Sutherland LR, Collins SM, Martin F, Mcleod R, Targan SR, Wallace JL and Williams CN (eds) Inflammatory Bowel Disease: Basic Research, Clinical Implications. Kluwer academic publishers, Dordrecht, Netherlands. 1994; 367-373.

Shanahan F. Medical management of active Crohn's disease. In: Consultations in Gastroenterology ed. Snape WJ. Jr. W.B. Saunders Company, Philadelphia, 1996: 408-413.

Shanahan F. Progress in pathogenesis of ulcerative colitis. In: Tytgat GNJ (ed), Inflammatory Bowel Diseases. Falk symposium 85. Den Haag, Netherlands June/July 1995. Kluwer academic publishers, Dordrecht, Netherlands 1995;85:32-39.

O’Sullivan GC, Shanahan F, O’Mahony A, Collins D, Collins JK. Tumor-derived immune suppression as a growth and metastatic advantage for human esophageal cancer. In: Perachia A, Rosati R, Bonavina L, Fumagalli U, Bona S, Chella B (editors). Recent Advances in Diseases of the Oesophagus - Proceedings of the Sixth World Congress of the International Society for Diseases of the Esophagus, Milan August 1995. Monduzzi Editore, International Proceedings Division, Bologna 1996; 63-66.

Shanahan F. IBD-associated ANCA - Current status. In: McLeod R editor, Trends in Inflammatory Bowel Disease Therapy 1996 Kluwer academic publishers, Dordrecht, Netherlands, 1996, 12-13.

O’Sullivan GC, O’Brien MG, O’Connell J, Collins JK, Shanahan F. Host-tumour immune responses at the EGJ: What is the role of T lymphocyte function in tumours of the gastric cardia? In: Dis OESO The Esophagogastric Junction. edited by Giuli R, Galmiche JP, Scarpignato C. John Libbey Eurotext (in press, 1997).

Shanahan F. The gastrointestinal immune system. In: Comprehensive Toxicology, - - volume 9 Hepatic and Gastrointestinal Toxicology Editors-in-chief Sipes IG, McQueen CA, Gandolfi AJ, Volume editors McCuskey R, Earnest DL. Elsevier Science Ltd.1997; vol 9:539-548.

O’Connell J, Goode C, Shanahan F. Quantitative measurement of mRNA expression by competitive RT-PCR. In: Methods in Molecular Biology, 1997; Vol 92:183-193. PCR in Bionanalysis edited by Meltzer SL, Humana Press Inc., Totowa, New Jersey.

Shanahan F. Future treatment options for Crohn’s disease. In: Attualità sul morbo di Crohn. Edited by Corazza GR, Tinozzi S. Cisaplino, Milan 2000;213-223.

Cronin CC, Shanahan F. Crohn’s Disease. In: Quigley EMM, Marsh M. The Small Intestine. Blackwell Science, Cambridge MA (in press).

Shanahan F. Hereditary and Acquired Angioedema. In: Chronic Abdominal Pain, Olden K (editor) The Johns Hopkins Press (in press).

Shanahan F. Transplantation immunology and the gut. Graft-versus-host disease intestinal transplantation. In: Mahida Y (editor), Immunologic Aspects of Gastroenterology, Dordrecht, Kluwer Academic Publishers 2001;337-351.

Shanahan F. IBD: rationale for current focus on therapeutic modulation of gut flora.In Gut Ecology eds. Hart A, Stagg AJ, Graffner H, Glise H, Falk P, Kamm MA. Martin Dunitz Ltd. London 2002; 135-146.

Maguire D, Shanahan F, O'Sullivan GC., Diagnosis and significance of bone marrow micrometastases in Barrett's Esophagus section 5.4 pages 307-315 Eds H.W.Tilanus & SEA Atwood; Kluwer Academic Publishers; Dordrecht/Boston/London 2001.

Ryan P, Aarons S, Bennett MW, Lee G, O’Sullivan GC, O’Connell J, Shanahan F. Mycobacterium paratuberculosis detected by nested PCR in intestinal granulomas isolated by LCM in cases of Crohn’s disease. In: Methods in Molecular Biology 2002;93:205-211. RT-PCR Protocols edited by O’Connell J. Humana Press Inc, Totowa, NJ.

Goode T, Ho WZ, O’Connor T, Busteed S, Douglas SD, Shanahan F. Nested RT-PCR: Sensitivity Controls are Essential to Determine the Biological Significance of Detected mRNA. In: Methods in Molecular Biology 2002;93:65-79. RT-PCR Protocols edited by O’Connell J. Humana Press Inc, Totowa, NJ.

Mullan B, Fanning LJ, Shanahan F, Sullivan DG. RT-PCR for the Assessment of Genetically Heterogenous Populations of the Hepatitis C Virus. In: Methods in Molecular Biology 2002;93:171-188. RT-PCR Protocols edited by O’Connell J. Humana Press Inc, Totowa, NJ.

Shanahan F. Understanding inflammatory bowel disease. In: Research and Clinical Forums 2002;24(1):207-210. IBD and Salicylates – 5 edited by Modigliani R. Wells Medical Holdings Ltd., Kent, England.

Shanahan F. Role of bacteria in inflammatory bowel disease. p73-80. In: Infectious Diseases. Enteric Infectious Diseases. Elzenveld workshop 2002 Eds. Goossens H, Peetermans W, Strelens M. ISBN 9080824712 proceedings.

Shanahan F. Implications of pathophysiology for the clinical management of inflammatory bowel disease. In: Satsangi J, Sutherland L (eds). Inflammatory Bowel Diseases (4^th edition) 2003 ISBN 0 443 07121 7 Elsevier Science 153-164.

Shanahan F. The therapeutic use of probiotics in gastrointestinal inflammation. In: Functional Dairy Products. Eds. Tiina Mattila-Sandholm and Maria Saarela. CRC Press LLC, Florida 33431, USA. ISBN 0-8493-1743-6.

Shanahan F, Karp L, Targan S. Introduction: Inflammatory bowel disease: from bench to bedside. In: Targan S, Shanahan F and Karp L. (editors) Inflammatory Bowel Disease: From Bench to Bedside, 2^nd Edition. Kluwer Academic Publishers, Dordrecht , The Netherlands. 2003; 3-4.

Cronin C, Shanahan F. Understanding symptoms and signs in inflammatory bowel disease. In: Targan S, Shanahan F and Karp L. (editors) Inflammatory Bowel Disease: From Bench to Bedside, 2^nd Edition. Kluwer Academic Publishers, Dordrecht , The Netherlands. 2003; 253-267.

Marteau P, Shanahan F. Role of antibiotics and probiotics in the management of inflammatory bowel disease. In: Targan S, Shanahan F and Karp L. (editors) Inflammatory Bowel Disease: From Bench to Bedside, 2^nd Edition. Kluwer Academic Publishers, Dordrecht , The Netherlands. 2003; 573-585.

Targan S, Karp L and Shanahan F. Epilogue: Bench to bedside and back to bench. In: Targan S, Shanahan F and Karp L. (editors) Inflammatory Bowel Disease: From Bench to Bedside, 2^nd Edition. Kluwer Academic Publishers, Dordrecht , The Netherlands. 2003; 887-891.

Shanahan F. Probiotics: rationale, challenges and scope. In: Bernstein C (editor). The Inflammatory Bowel Disease Yearbook. Remedica Publishing, London. 2003;147-163.

Shanahan F. Colitis-associated cancer - time for new strategies. In:New developments in diagnosis and management of early and advanced GI malignancy. Eds:Tytgat GN, Pennincks, John Libbey Eurotext, Paris 2003;107-112 ISBN2-7420-0497-1

Shanahan F. Encyclopaedia of Gastroenterology 2004;235-36. Probiotics. edited by Johnson et al. Elsevier ISBN 0-12-386860-2

Bennet MF, Clune YE, Shanahan F, O'Sullivan G, Collins JK, Synbiotics in colon cancer. In:Functional foods: ageing and degenerative disease. eds Remacle C, Reusens B. Woodhead Publishing, Cambridge, England (ISBN 1 85573 735 3) 2004, pp 524-580..

McCarthy J, Sheil B, O’Mahony L, Anwar MM, Shanahan F. Probiotics in inflammatory bowel disease. In:Functional foods: ageing and degenerative disease. eds Remacle C, Reusens B. Woodhead Publishing, Cambridge, England (ISBN 1 85573 735 3) 2004, pp 708-725.

Shanahan F. Probiotics and inflammatory bowel disease - weighing promise and potential against progress. pp 125-134. In:Rutgeerts P, Van Assche G, Vermeire S (eds.) Treatment of IBD in the era of biologicals. University of Leuven, Belgium.

Shanahan F. Chapter 53. Ulcerative colitis. In: Clinical Gastroenterology and Hepatology. Weinstein WM, Hawkey CJ, Bosch J (eds). Elsevier Mosby pp 343-357.

Books

Targan S and Shanahan F.  (editors)  Immunology and Immunopathology of the Liver and Gastrointestinal Tract, Igaku-Shoin, New York and Tokyo, 1990.  (pages # 656)

Targan S and Shanahan F. (editors) Inflammatory Bowel Disease: From Bench to Bedside.  Williams & Wilkins, Baltimore 1994. (pages # 795)

Targan S, Shanahan F, Karp L.  Inflammatory Bowel Disease: From Bench to Bedside (2^nd edition) 2003 (pages 903) Kluwer Academic Publishers, Dordrecht.

Rampton D, Shanahan F. (authors) Inflammatory bowel disease: Fast Facts 2001 Healthcare Press, London.

Rampton D, Shanahan F. (authors) 2^nd Inflammatory bowel disease: Fast Facts (in press)  Healthcare Press, London.

Irving P, Rampton D, Shanahan F (editors) 64 Clinical dilemmas in IBD, Blackwell Scientific, London (in press).