My Bibliography

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Wong SY, Rowan C, Brockmans ED, Law CCY, Giselbrecht E, Ang C, Khaitov S, Sachar D, Polydorides AD, Winata LS, Verstockt B, Spinelli A, Rubin DT, Deepak P, McGovern DPB, McDonald BD, Lung P, Lundby L, Lightner AL, Holubar SD, Hanna L, Hamarth C, Geldof J, Dige A, Cohen BL, Carvello M, Bonifacio C, Bislenghi G, Behrenbruch C, Ballard DH, Altinmakas E, Sebastian S, Tozer P, Hart A, Colombel JF. Perianal Fistulizing Crohn's Disease-Associated Anorectal and Fistula Cancers: Systematic Review and Expert Consensus. Clin Gastroenterol Hepatol. 2025 May;23(6):927-945.e2. doi: 10.1016/j.cgh.2024.05.029. Epub 2024 Jun 12. Review. PubMed PMID: 38871152.

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Anderson SR, Ayoub M, Coats S, McHenry S, Tan T, Deepak P. Safety and Effectiveness of Glucagon-like Peptide-1 Receptor Agonists in Inflammatory Bowel Disease. Am J Gastroenterol. 2025 May 1;120(5):1152-1155. doi: 10.14309/ajg.0000000000003208. Epub 2024 Nov 14. PubMed PMID: 39717004.

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Johnson AM, Askar M, Belani S, Khan A, Xu AA, Kassmeyer B, Said H, Santiago-Castro M, Devi J, Huang K, Jaiprada F, Seth N, Dulaney D, Loftus EV Jr, Fenster M, Patel A, Bishu S, Ungaro RC, Shukla R, Yarur AJ, Deepak P. A Multicenter Study of the Real-World Effectiveness and Safety of Risankizumab in Crohn's Disease. J Crohns Colitis. 2025 Apr 24;. doi: 10.1093/ecco-jcc/jjaf070. [Epub ahead of print] PubMed PMID: 40289770.

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Anand E, Devi J, Ballard DH, Joshi S, Tozer P, Hart A, Antoniou A, Deepak P, Stoker J, Lung P. Defining Radiological Healing in Perianal Fistulizing Crohn's Disease: a TOpClass Global Expert Delphi Consensus. Clin Gastroenterol Hepatol. 2025 Apr 8;. doi: 10.1016/j.cgh.2025.02.009. [Epub ahead of print] PubMed PMID: 40210078.

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Abushamma S, Yadete T, Nero N, Falloon K, Parker CE, Abreu MT, Ahuja V, Armuzzi A, Bemelman W, Bruining DH, Deepak P, Dignass A, Dotan I, Feagan BG, Fulmer C, Halfvarson J, Hart A, Holubar SD, Leong RW, Ma C, Magro F, McCurdy JD, Narula N, Panés J, Raine T, Regueiro M, Rogler G, Singh S, Sparrow MP, Spinelli A, Van Koughnett JA, Vuyyuru SK, Solitano V, Yuan Y, Jairath V, Rieder F. Definitions, diagnosis, and management of postoperative recurrence in Crohn's disease patients with permanent ileostomy-a systematic review and meta-analysis. J Crohns Colitis. 2025 Apr 4;19(4). doi: 10.1093/ecco-jcc/jjaf041. PubMed PMID: 40066499.

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Lamm V, Huang K, Deng R, Cao S, Wang M, Soleymanjahi S, Promlek T, Rodgers R, Davis D, Nix D, Escudero GO, Xie Y, Chen CH, Gremida A, Rood RP, Liu TC, Baldridge MT, Deepak P, Davidson NO, Kaufman RJ, Ciorba MA. Tauroursodeoxycholic Acid (TUDCA) Reduces ER Stress and Lessens Disease Activity in Ulcerative Colitis. medRxiv. 2025 Apr 4;. doi: 10.1101/2025.04.02.25322684. PubMed PMID: 40236400; PubMed Central PMCID: PMC11998832.

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Anand E, Devi J, Antoniou A, Joshi S, Stoker J, Lung P, Hart A, Tozer P, Ballard DH, Deepak P. Patients' Attitudes to Magnetic Resonance Imaging in Perianal Fistulizing Crohn's Disease: A Global Survey. Crohns Colitis 360. 2025 Apr;7(2):otaf015. doi: 10.1093/crocol/otaf015. eCollection 2025 Apr. PubMed PMID: 40224952; PubMed Central PMCID: PMC11983384.

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Devi J, Xu A, Stone M, Patel A, Khan A, Reddy N, Klein J, Chowla N, Benson C, Luu BC, Huang K, Jaiprada F, Fenster M, Ungaro R, Pekow J, Johnson AM, Yarur AJ, Shukla R, Huecker J, Bishu S, Deepak P. Real-World Effectiveness and Safety of Upadacitinib in Crohn's Disease: A Multicenter Study. Clin Gastroenterol Hepatol. 2025 Mar 8;. doi: 10.1016/j.cgh.2025.01.012. [Epub ahead of print] PubMed PMID: 40058746.

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Kayal M, Spencer EA, Smyth M, Raffals L, Qazi T, Deepak P, Beniwal-Patel P, Chang S, Higgins P, Cross RK, Anderson C, Long M, Herfarth HH, Dubinsky MC, Barnes EL. Risankizumab Is Effective for The Management of Crohn's Disease of the Pouch. Inflamm Bowel Dis. 2025 Mar 3;31(3):878-881. doi: 10.1093/ibd/izae164. PubMed PMID: 39038228; PubMed Central PMCID: PMC11879156.

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Shenoy S, Jena A, Levinson C, Sharma V, Deepak P, Aswani-Omprakash T, Sebastian S, Colombel JF, Agrawal M. Inflammatory bowel disease in south Asia: a scoping review. Lancet Gastroenterol Hepatol. 2025 Mar;10(3):259-274. doi: 10.1016/S2468-1253(24)00341-8. Review. PubMed PMID: 39954693.

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Fiorino G, Ananthakrishnan A, Cohen RD, Cross RK, Deepak P, Farraye FA, Halfvarson J, Steinhart AH. Accelerating Earlier Access to Anti-TNF-α Agents with Biosimilar Medicines in the Management of Inflammatory Bowel Disease. J Clin Med. 2025 Feb 26;14(5). doi: 10.3390/jcm14051561. Review. PubMed PMID: 40095484; PubMed Central PMCID: PMC11900083.

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Munster LJ, Hanna LN, Hart AL, Tozer PJ, Buskens CJ, van der Bilt JDW. Diagnosing Crohn's disease in presumed cryptoglandular perianal fistulas: an expert Delphi consensus on early identification of patients at risk of Crohn's disease in perianal fistulas (PREFAB). J Crohns Colitis. 2025 Jan 11;19(1). doi: 10.1093/ecco-jcc/jjaf002. PubMed PMID: 39777453; PubMed Central PMCID: PMC11783332.

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Alayo QA, Famutimi D, Ayoub M, De Las Fuentes L, Deepak P. Performance of ASCVD Risk Prediction Models in Individuals With Inflammatory Bowel Disease: A UK Biobank Study. Inflamm Bowel Dis. 2025 Jan 6;31(1):285-289. doi: 10.1093/ibd/izae007. PubMed PMID: 38241516.

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Yarur AJ, Ungaro R, Huang K, Wang W, Sasankan P, Zulqarnain M, Johnson AM, Bader G, Kay C, Costable N, Dulaney D, Fenster M, Beniwal-Patel P, Syal G, Patel A, Loftus E Jr, Pekow J, Cohen B, Deepak P. Real-World Effectiveness of Ustekinumab in Ulcerative Colitis in a United States Multicenter Cohort Consortium. Inflamm Bowel Dis. 2025 Jan 6;31(1):131-139. doi: 10.1093/ibd/izae058. PubMed PMID: 38531068; PubMed Central PMCID: PMC11700893.

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Cao S, Nguyen KM, Ma K, Du X, Liu X, Ulezko Antonova A, Rood RP, Gremida A, Chen CH, Gutierrez A, Rubin DC, Gregory MH, Gergely M, Escudero GO, Huang K, Jaeger N, Cella M, Newberry RD, Davidson NO, Ciorba MA, Deepak P, Colonna M. Mucosal Single-Cell Profiling of Crohn's-Like Disease of the Pouch Reveals Unique Pathogenesis and Therapeutic Targets. Gastroenterology. 2024 Dec;167(7):1399-1414.e2. doi: 10.1053/j.gastro.2024.07.025. Epub 2024 Jul 30. PubMed PMID: 39084267; PubMed Central PMCID: PMC11973979.

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Anand E, Devi J, Joshi S, Antoniou A, Doering M, Stoker J, Lung P, Hart AL, Ballard DH, Deepak P, Tozer P. Consensus definition of a radiologically healed fistula on magnetic resonance imaging in perianal Crohn's disease: an international Delphi study. BMJ Open. 2024 Nov 18;14(11):e087919. doi: 10.1136/bmjopen-2024-087919. PubMed PMID: 39557555; PubMed Central PMCID: PMC11574496.

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Gorelik MG, Gorelik AJ, Fishbein SRS, Fehlmann T, Deepak P, Bogdan R, Dantas G, Jain U. Improving Differentiation of Crohn's Disease and Ulcerative Colitis Proteomes through Protein-Wide Association Study Feature Selection in Machine Learning. medRxiv. 2024 Nov 13;. doi: 10.1101/2024.11.13.24316854. PubMed PMID: 39606394; PubMed Central PMCID: PMC11601736.

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Cao S, Nguyen KM, Ma K, Yao X, Liu TC, Ayoub M, Devi J, Liu Y, Smith R, Silviera M, Hunt SR, Wise PE, Mutch MG, Glasgow SC, Chapman WC Jr, Cowan M, Ciorba MA, Colonna M, Deepak P. Single-Cell and Spatial Multi-omics Reveal Interferon Signaling in the Pathogenesis of Perianal Fistulizing Crohn's Disease. bioRxiv. 2024 Nov 10;. doi: 10.1101/2024.11.08.620717. PubMed PMID: 39574705; PubMed Central PMCID: PMC11581043.

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Alizadeh M, Motwani K, Siaton BC, Abutaleb A, Ravel J, Cross RK. Factors Associated With Extraintestinal Manifestations of Inflammatory Bowel Disease in SPARC-IBD. Inflamm Bowel Dis. 2024 Nov 4;30(11):2027-2036. doi: 10.1093/ibd/izad280. PubMed PMID: 38102817; PubMed Central PMCID: PMC11532592.

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Garuba F, Ganapathy A, Huang K, Bishop G, Zhang H, Lovato A, Itani M, Viswanath SE, Fraum TJ, Deepak P, Ballard DH. Evaluating the Change in (18)F-Fluorodeoxyglucose Uptake in Perianal Fistulas on PET/CT over Time: A Serial Retrospective Analysis. Acad Radiol. 2024 Oct;31(10):4068-4075. doi: 10.1016/j.acra.2024.04.014. Epub 2024 May 11. PubMed PMID: 38734577.

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Schroeder MK, Abushamma S, George AT, Ravella B, Hickman J, Elumalai A, Wise P, Zulfiqar M, Ludwig DR, Shetty A, Viswanath SE, Luo C, Sebastian S, Ballard DH, Deepak P. TOpCLASS Expert Consensus Classification of Perianal Fistulising Crohn's Disease: A Real-world Application in a Serial Fistula MRI Cohort. J Crohns Colitis. 2024 Sep 3;18(9):1430-1439. doi: 10.1093/ecco-jcc/jjae056. PubMed PMID: 38642332.

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Zamani M, Mattay SS, Singh S, Deepak P. Reply. Clin Gastroenterol Hepatol. 2024 Aug;22(8):1749-1750. doi: 10.1016/j.cgh.2024.01.025. Epub 2024 Feb 2. PubMed PMID: 38311147.

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Ghannam RB, Barnell EK, Osman A, Roberts R, Donohue P, King S, Land J, Grass C, Ciorba MA, Deepak P. Noninvasive Stool RNA Test Approximates Disease Activity in Patients With Crohn's Disease. Gastro Hep Adv. 2024;3(8):1079-1086. doi: 10.1016/j.gastha.2024.07.012. eCollection 2024. PubMed PMID: 39529640; PubMed Central PMCID: PMC11550734.

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Huang K, Garuba F, Ganapathy A, Bishop G, Zhang H, Lovato A, Itani M, Viswanath SE, Fraum TJ, Deepak P, Ballard DH. Quantifying (18)F-Fluorodeoxyglucose Uptake in Perianal Fistulas on PET/CT: A Retrospective Analysis. Acad Radiol. 2024 Jul;31(7):2775-2783. doi: 10.1016/j.acra.2023.12.020. Epub 2024 Jan 3. PubMed PMID: 38177032.

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Prado E, Law CCY, Rowan C, Osman A, Gore E, Ballard DH, Ludwig DR, Tsai R, Gergely M, Geahchan A, Taouli B, Abboud G, Altinmakas E, Rajauria P, Colombel JF, Ungaro RC, Deepak P. Lemann Index for assessing bowel damage in Crohn's disease: a real world study. J Crohns Colitis. 2024 Jun 27;. doi: 10.1093/ecco-jcc/jjae102. [Epub ahead of print] PubMed PMID: 38935558.

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Famutimi D, Alayo QA, Deepak P. Reply to: Beyond Discrimination: A Call for Comprehensive Assessment of Clinical Prediction Models in Inflammatory Bowel Disease. Inflamm Bowel Dis. 2024 Jun 3;30(6):1052. doi: 10.1093/ibd/izae049. PubMed PMID: 38457529.

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McKinley S, Garuba F, Itani M, Deepak P, Ballard DH. Inflammatory and Malignant Uptake Along Crohn Perianal Fistula on 18 F-FDG. Clin Nucl Med. 2024 Jun 1;49(6):554-556. doi: 10.1097/RLU.0000000000005181. Epub 2024 Mar 25. PubMed PMID: 38537214.

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Motwani KK, Alizadeh M, Abutaleb A, Grossman J, Wellington J, Cross RK. Correlation Between Serum and Fecal Biomarkers and Patient-Reported Outcomes in Patients with Crohn's Disease and Ulcerative Colitis. Dig Dis Sci. 2024 Jun;69(6):2154-2163. doi: 10.1007/s10620-024-08421-w. Epub 2024 Apr 5. PubMed PMID: 38580888.

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Motwani KK, Alizadeh M, Abutaleb A, Grossman J, Wellington J, Cross RK. Correction to: Correlation Between Plasma and Fecal Biomarkers and Patient‑Reported Outcomes in Patients with Crohn's Disease and Ulcerative Colitis. Dig Dis Sci. 2024 Jun;69(6):2164. doi: 10.1007/s10620-024-08469-8. PubMed PMID: 38753242.

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Garuba F, Ganapathy A, McKinley S, Jani KH, Lovato A, Viswanath SE, McHenry S, Deepak P, Ballard DH. Quantification of Visceral Fat at the L5 Vertebral Body Level in Patients with Crohn's Disease Using T2-Weighted MRI. Bioengineering (Basel). 2024 May 22;11(6). doi: 10.3390/bioengineering11060528. PubMed PMID: 38927764; PubMed Central PMCID: PMC11200797.

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Lewis JD, Daniel SG, Li H, Hao F, Patterson AD, Hecht AL, Brensinger CM, Wu GD, Bittinger K. Surgery for Crohn's Disease Is Associated With a Dysbiotic Microbiome and Metabolome: Results From Two Prospective Cohorts. Cell Mol Gastroenterol Hepatol. 2024;18(3):101357. doi: 10.1016/j.jcmgh.2024.05.005. Epub 2024 May 14. PubMed PMID: 38750900; PubMed Central PMCID: PMC11278594.

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Cao S, Fachi JL, Ma K, Ulezko Antonova A, Wang Q, Cai Z, Kaufman RJ, Ciorba MA, Deepak P, Colonna M. The IRE1α/XBP1 pathway sustains cytokine responses of group 3 innate lymphoid cells in inflammatory bowel disease. J Clin Invest. 2024 May 9;134(13). doi: 10.1172/JCI174198. PubMed PMID: 38722686; PubMed Central PMCID: PMC11214543.

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McHenry S, Glover M, Ahmed A, Alayo Q, Zulfiqar M, Ludwig DR, Ciorba MA, Davidson NO, Deepak P. NAFLD Is Associated With Quiescent Rather Than Active Crohn's Disease. Inflamm Bowel Dis. 2024 May 2;30(5):757-767. doi: 10.1093/ibd/izad129. PubMed PMID: 37454277; PubMed Central PMCID: PMC11491614.

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Mattay SS, Zamani M, Saturno D, Loftus EV Jr, Ciorba MA, Yarur A, Singh S, Deepak P. Risk of Major Adverse Cardiovascular Events in Immune-Mediated Inflammatory Disorders on Biologics and Small Molecules: Network Meta-Analysis. Clin Gastroenterol Hepatol. 2024 May;22(5):961-970.e12. doi: 10.1016/j.cgh.2023.09.033. Epub 2023 Oct 10. Review. PubMed PMID: 37821035.

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Armuzzi A, Cross RK, Lichtenstein GR, Hou J, Deepak P, Regueiro M, Wolf DC, Akukwe L, Ahmad HA, Jain A, Kozinn M, Wu H, Petersen A, Charles L, Long M. Cardiovascular Safety of Ozanimod in Patients With Ulcerative Colitis: True North and Open-Label Extension Analyses. Clin Gastroenterol Hepatol. 2024 May;22(5):1067-1076.e3. doi: 10.1016/j.cgh.2023.11.018. Epub 2023 Nov 30. PubMed PMID: 38040274.

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Ayoub M, Mattay S, Yarur AJ, Deepak P. Managing Risks with Newer Oral Small Molecules in Patients with Inflammatory Bowel Diseases. Curr Gastroenterol Rep. 2024 May;26(5):145-156. doi: 10.1007/s11894-024-00923-x. Epub 2024 Feb 14. Review. PubMed PMID: 38353899.

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Devi J, Deepak P, Butt AS. Strategies for Enhancing Inflammatory Bowel Disease Care in Pakistan: Bridging Gaps and Building Capacities. Crohns Colitis 360. 2024 Apr;6(2):otae027. doi: 10.1093/crocol/otae027. eCollection 2024 Apr. PubMed PMID: 38720936; PubMed Central PMCID: PMC11078041.

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Kayal M, Deepak P, Beniwal-Patel P, Raffals L, Dubinsky M, Chang S, Higgins PDR, Jiang Y, Cross RK, Long MD, Herfarth HH, Barnes EL. Changes in Therapy Are Not Associated With Increased Remission in Patients With Crohn's Disease of the Pouch. Am J Gastroenterol. 2024 Mar 1;119(3):584-587. doi: 10.14309/ajg.0000000000002599. Epub 2023 Nov 17. PubMed PMID: 37975591; PubMed Central PMCID: PMC11273367.

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Sachan A, Kakadiya R, Mishra S, Kumar-M P, Jena A, Gupta P, Sebastian S, Deepak P, Sharma V. Artificial intelligence for discrimination of Crohn's disease and gastrointestinal tuberculosis: A systematic review. J Gastroenterol Hepatol. 2024 Mar;39(3):422-430. doi: 10.1111/jgh.16430. Epub 2023 Dec 6. PubMed PMID: 38058246.

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Schroeder M, Abushamma S, George AT, Balakrishna R, Hickman J, Elumalai A, Wise P, Zulfiqar M, Ludwig DR, Shetty A, Viswanath SE, Luo C, Sebastian S, Ballard DH, Deepak P. Geldof Expert Consensus Classification of Perianal Fistulizing Crohn's Disease: A Real-World Application in a Serial Fistula MRI Cohort. medRxiv. 2024 Feb 4;. doi: 10.1101/2024.02.03.24302160. PubMed PMID: 38352377; PubMed Central PMCID: PMC10863007.

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Devi J, Ballard DH, Aswani-Omprakash T, Parian AM, Deepak P. Perianal fistulizing Crohn's disease: Current perspectives on diagnosis, monitoring and management with a focus on emerging therapies. Indian J Gastroenterol. 2024 Feb;43(1):48-63. doi: 10.1007/s12664-024-01524-2. Epub 2024 Feb 3. Review. PubMed PMID: 38308773.

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Lapp SL, Bewtra M, Lewis JD. Yield of Serial Testing for Tuberculosis Exposure in Patients With Inflammatory Bowel Diseases: One Test is Not Enough. Clin Gastroenterol Hepatol. 2024 Feb;22(2):420-422.e2. doi: 10.1016/j.cgh.2023.06.003. Epub 2023 Jun 17. PubMed PMID: 37331412; PubMed Central PMCID: PMC10725512.

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McCurdy JD, Stwalley D, Olsen MA, Deepak P. Comparative Effectiveness of Biologic Therapies in Preventing Penetrating Complications in Patients With Crohn's Disease. Clin Gastroenterol Hepatol. 2024 Feb;22(2):377-385.e5. doi: 10.1016/j.cgh.2023.08.017. Epub 2023 Sep 4. PubMed PMID: 37673348.

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Reyes Genere J, Ballard DH, Deepak P. Three-Dimensional Modeling to Guide Interventional Endoscopy in Fibrostenotic Crohn's Disease. Am J Gastroenterol. 2024 Feb 1;119(2):239. doi: 10.14309/ajg.0000000000002558. Epub 2023 Nov 10. PubMed PMID: 37830639.

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Yarur AJ, Deepak P. Reply. Gastroenterology. 2024 Feb;166(2):357-358. doi: 10.1053/j.gastro.2023.11.013. Epub 2023 Nov 11. PubMed PMID: 37952900.

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Ganapathy A, Navale P, Mutch MG, Kim H, Ballard DH, Deepak P. Long-Standing Symptomatic Fistulizing Perianal Crohn's Disease: Progression Beyond Inflammation. Gastroenterology. 2024 Jan;166(1):36-43.e2. doi: 10.1053/j.gastro.2023.09.007. Epub 2023 Sep 12. PubMed PMID: 37709172.

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Holtz LR, Nix BD, Akuse SE, Hall-Moore C, Newberry RD, Ciorba MA, Deepak P, Zulfiqar M, Shieh JJ, Johnson JR, Riley IR, Dorshow RB. First-in-Human Assessment of Gut Permeability in Crohn's Disease Patients Using Fluorophore Technology. Gastro Hep Adv. 2024;3(4):491-497. doi: 10.1016/j.gastha.2024.02.003. PubMed PMID: 38813093; PubMed Central PMCID: PMC11129951.

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Yarur AJ, Abreu MT, Deepak P, Beniwal-Patel P, Papamichael K, Vaughn B, Bruss A, Sekhri S, Moosreiner A, Gu P, Kennedy W, Dubinsky M, Cheifetz A, Melmed GY. Patients With Inflammatory Bowel Diseases and Higher Visceral Adipose Tissue Burden May Benefit From Higher Infliximab Concentrations to Achieve Remission. Am J Gastroenterol. 2023 Nov 1;118(11):2005-2013. doi: 10.14309/ajg.0000000000002330. Epub 2023 May 19. PubMed PMID: 37207314; PubMed Central PMCID: PMC10720850.

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Garuba FO, McPhie JM, Anolik RA, Deepak P, Ballard DH, Smith RK. Perineal hernia as a sequela of anal reconstruction surgeries in perianal Crohn's disease. Radiol Case Rep. 2023 Nov;18(11):3988-3992. doi: 10.1016/j.radcr.2023.08.071. eCollection 2023 Nov. PubMed PMID: 37691760; PubMed Central PMCID: PMC10483503.

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Desai A, Deepak P, Cross RK, Murone J, Farraye FA, Ungaro RC, Kochhar GS. Effect of 2 vs 3 Doses of COVID-19 Vaccine in Patients With Inflammatory Bowel Disease: A Population-based Propensity Matched Analysis. Inflamm Bowel Dis. 2023 Oct 3;29(10):1563-1571. doi: 10.1093/ibd/izac252. PubMed PMID: 36576102.