Vivek Rudrapatna, MD, PhD
Assistant Professor
Medicine
School of Medicine

Towards these goals, his team draws inspiration from a variety of disciplines within the data sciences, including biostatistics, natural language processing, machine learning, and artificial intelligence.

Current areas of focus include: -Information extraction from clinical notes using Large Language Models -Retrospective emulation of clinical trials using EHR data -Reducing diagnostic delays using machine learning -Personalizing treatment selection using EHR and RCT data -Reinforcement learning for optimal clinical decision making

• Algorithmic Identification of Treatment-Emergent Adverse Events From Clinical Notes Using Large Language Models: A Pilot Study in Inflammatory Bowel Disease.
  Clinical pharmacology and therapeutics 2024 Silverman AL, Sushil M, Bhasuran B, Ludwig D, Buchanan J, Racz R, Parakala M, El-Kamary S, Ahima O, Belov A, Choi L, Billings M, Li Y, Habal N, Liu Q, Tiwari J, Butte AJ, Rudrapatna VA
• Characterisation of digital therapeutic clinical trials: a systematic review with natural language processing.
  The Lancet. Digital health 2024 Miao BY, Sushil M, Xu A, Wang M, Arneson D, Berkley E, Subash M, Vashisht R, Rudrapatna V, Butte AJ
• Quantifying Diagnostic Delays in Patients with Indolent and Aggressive Systemic Mastocytosis.
  Journal of Allergy and Clinical Immunology 2024 Hunter Mills, Christoper Yuen, Cecilia Arana-Yi, Vivek Rudrapatna
• Assessing the Impact of COVID-19 on IBD Outcomes Among Vulnerable Patient Populations in a Large Metropolitan Center.
  Inflammatory bowel diseases 2024 Odufalu FD, Sewell JL, Rudrapatna V, Somsouk M, Mahadevan U
• Personalizing treatment selection in Crohn's disease: a meta-analysis of individual participant data from fifteen randomized controlled trials.
  medRxiv : the preprint server for health sciences 2023 Rudrapatna VA, Ravindranath VG, Arneson DV, Mosenia A, Butte AJ, Wang S
• Sequential regression and simulation: a method for estimating causal effects from heterogeneous clinical trials without a common control group.
  BMC medical research methodology 2023 Rudrapatna VA, Ravindranath VG, Arneson DV, Mosenia A, Butte AJ, Wang S
• S1012 Algorithmic Identification of Treatment-Emergent Adverse Events From Clinical Notes Using Large Language Models: A Pilot Study in Inflammatory Bowel Disease.
  The American Journal of Gastroenterology 2023 Anna L. Silverman, Madhumita Sushil, Balu Bhasuran, Dana Ludwig, James Buchanan, Rebecca Racz, Mahalakshmi Parakala, Samer El-Kamary, Ohenewaa Ahima, Artur Belov, Lauren Choi, Monisha Billings, Yan Li…
• S1394 NASHDetection: A Natural Language Processing Method for Identifying Patients With Non-alcoholic Steatohepatitis Using Clinical Notes.
  The American Journal of Gastroenterology 2023 Balu Bhasuran, Shadera Slatter, Gail Fernandes, Boshu Ru, Joe Yang, Xiao Zhang, Ravi Shankar, Jin Ge, Vivek Rudrapatna
• S1395 Uncontrolled Diabetes and Hypertension Are Associated With the Risk of New-Onset Cirrhosis in Patients With Nonalcoholic Steatohepatitis.
  The American Journal of Gastroenterology 2023 Balu Bhasuran, Shadera Slatter, Gail Fernandes, Boshu Ru, Joe Yang, Xiao Zhang, Ravi Shankar, Vivek Rudrapatna, Jin Ge
• S936 Optimizing Treatment Selection in Crohn’s Disease Using Patient-Specific Features: An Individual Participant Data Meta-Analysis of Fifteen Randomized Controlled Trials.
  The American Journal of Gastroenterology 2023 Vivek Rudrapatna, Vignesh Ravindranath, Douglas Arneson, Arman Mosenia, Atul Butte, Shan Wang
• Algorithmic identification of treatment-emergent adverse events from clinical notes using large language models: a pilot study in inflammatory bowel disease.
  medRxiv : the preprint server for health sciences 2023 Silverman AL, Sushil M, Bhasuran B, Ludwig D, Buchanan J, Racz R, Parakala M, El-Kamary S, Ahima O, Belov A, Choi L, Billings M, Li Y, Habal N, Liu Q, Tiwari J, Butte AJ, Rudrapatna VA
• Reducing diagnostic delays in Acute Hepatic Porphyria using electronic health records data and machine learning: a multicenter development and validation study.
  medRxiv : the preprint server for health sciences 2023 Bhasuran B, Schmolly K, Kapoor Y, Jayakumar NL, Doan R, Amin J, Meninger S, Cheng N, Deering R, Anderson K, Beaven SW, Wang B, Rudrapatna VA
• ALK Inhibitor Treatment Patterns and Outcomes in Real-World Patients with ALK-Positive Non-Small-Cell Lung Cancer: A Retrospective Cohort Study.
  Targeted oncology 2023 Wang M, Slatter S, Sussell J, Lin CW, Ogale S, Datta D, Butte AJ, Bazhenova L, Rudrapatna VA
• Creation of an ustekinumab external control arm for Crohn's disease using electronic health records data: A pilot study.
  PloS one 2023 Rudrapatna VA, Cheng YW, Feuille C, Mosenia A, Shih J, Shi Y, Roberson O, Rubin B, Butte AJ, Mahadevan U, Skomrock N, Erondu N, Chehoud C, Rahim S, Apfel D, Curran M, Khan NS, O'Brien C, Terry N, …
• Comparative Safety and Effectiveness of Biologic Therapy for Crohn's Disease: A CA-IBD Cohort Study.
  Clinical gastroenterology and hepatology : the official clinical practice journal of the American Gastroenterological Association 2022 Singh S, Kim J, Luo J, Paul P, Rudrapatna V, Park S, Zheng K, Syal G, Ha C, Fleshner P, McGovern D, Sauk JS, Limketkai B, Dulai PS, Boland BS, Eisenstein S, Ramamoorthy S, Melmed G, Mahadevan U, …
• Effect of Obesity on Risk of Hospitalization, Surgery, and Serious Infection in Biologic-Treated Patients With Inflammatory Bowel Diseases: A CA-IBD Cohort Study.
  The American journal of gastroenterology 2022 Gu P, Luo J, Kim J, Paul P, Limketkai B, Sauk JS, Park S, Parekh N, Zheng K, Rudrapatna V, Syal G, Ha C, McGovern DP, Melmed GY, Fleshner P, Eisenstein S, Ramamoorthy S, Dulai PS, Boland BS, Grunvald …
• Effectiveness and Safety of Biologic Therapy in Hispanic Vs Non-Hispanic Patients With Inflammatory Bowel Diseases: A CA-IBD Cohort Study.
  Clinical gastroenterology and hepatology : the official clinical practice journal of the American Gastroenterological Association 2022 Nguyen NH, Luo J, Paul P, Kim J, Syal G, Ha C, Rudrapatna V, Park S, Parekh N, Zheng K, Sauk JS, Limketkai B, Fleshner P, Eisenstein S, Ramamoorthy S, Melmed G, Dulai PS, Boland BS, Mahadevan U, …
• 454: OBESITY IS NOT ASSOCIATED WITH INCREASED RISK OF ADVERSE TREATMENT OUTCOMES OR SERIOUS INFECTION IN INFLAMMATORY BOWEL DISEASES PATIENTS (IBD) STARTING NEW BIOLOGIC THERAPY.
  Gastroenterology 2022 Phillip Gu, Jiyu Luo, Paulina Paul, Berkeley N. Limketkai, Jenny S. Sauk, Sunhee Park, Nimisha K. Parekh, Kai Zheng, Vivek A. Rudrapatna, Gaurav Syal, Christina Ha, Dermot P.B. Mcgovern, Gil Melmed, …
• Su1018: UNPLANNED HEALTHCARE UTILIZATION AND SAFETY OF BIOLOGIC THERAPY IN HISPANIC VS. NON-HISPANIC PATIENTS WITH IBD.
  Gastroenterology 2022 Nghia H. Nguyen, Jiyu Luo, Paulina Paul, Jihoon Kim, Gaurav Syal, Christina Ha, Vivek A. Rudrapatna, Sunhee Park, Nimisha K. Parekh, Kai Zheng, Jenny S. Sauk, Berkeley N. Limketkai, Phillip Fleshner, …
• Su1534: ACCURATE, ROBUST, AND SCALABLE ABSTRACTION OF MAYO ENDOSCOPIC SUBSCORES FROM COLONOSCOPY REPORTS.
  Gastroenterology 2022 Anna L. Silverman, Balu Bhasuran, Arman Mosenia, Fatema Yasini, Saransh Gupta, Narbe Mardirossian, Rohan Narain, Justin L. Sewell, Atul Butte, Vivek A. Rudrapatna
• Case-control study of the association of chronic acid suppression and social determinants of health with COVID-19 infection.
  Scientific reports 2021 Zhang B, Silverman AL, Bangaru S, Arneson D, Dasharathy S, Nguyen N, Rodden D, Shih J, Butte AJ, El-Nachef WN, Boland BS, Rudrapatna VA
• Fr001 PROTON PUMP INHIBITOR AND RISK OF SARS-COV-2 INFECTION: A MULTI-CENTER EXPERIENCE.
  Gastroenterology 2021 Anna L. Silverman, Douglas Arneson, Saroja Bangaru, Bing Zhang, Diane Rodden, Sonya Dasharathy, Jonathan Shih, Nghia H. Nguyen, Wael N. El-Nachef, Brigid Boland, Vivek Rudrapatna
• Utility of routinely collected electronic health records data to support effectiveness evaluations in inflammatory bowel disease: a pilot study of tofacitinib.
  BMJ health & care informatics 2021 Rudrapatna VA, Glicksberg BS, Butte AJ
• CovidCounties is an interactive real time tracker of the COVID19 pandemic at the level of US counties.
  Scientific data 2020 Arneson D, Elliott M, Mosenia A, Oskotsky B, Solodar S, Vashisht R, Zack T, Bleicher P, Butte AJ, Rudrapatna VA
• S0525 An Electronic Health Records-Based Intervention Improves Appropriate Referrals for Upper Endoscopy: A Prospective, Single Center Study.
  The American Journal of Gastroenterology 2020 Vivek Rudrapatna, Myung Ko, Arman Mosenia, Kavita Radhakrishnan, Atul Butte, Priya Kathpalia
• S0818 Accurate Machine Classification of Ulcerative Colitis Mayo Subscores From Electronic Health Record Procedure Reports.
  The American Journal of Gastroenterology 2020 Vivek Rudrapatna, Saransh Gupta, Taline Mardirossian, Rohan Narain, Arman Mosenia, Atul Butte
• 518 AN ELECTRONIC MEDICAL RECORDS-BASED INTERVENTION REDUCES UNNECESSARY ENDOSCOPIES FOR HEARTBURN AND DYSPEPSIA.
  Gastroenterology 2020 Myung S. Ko, Vivek Rudrapatna, Arman Mosenia, Kavita Radhakrishnan, Priya Kathpalia
• Sa1851 LOW PREVALENCE OF NONALCOHOLIC FATTY LIVER DISEASE IN ADOLESCENTS WITH INFLAMMATORY BOWEL DISEASE.
  Gastroenterology 2020 Emilie Regner, Vivek Rudrapatna, Sofia G. Verstraete, Bilal Hameed, Uma Mahadevan
• Accuracy of medical billing data against the electronic health record in the measurement of colorectal cancer screening rates.
  BMJ open quality 2020 Rudrapatna VA, Glicksberg BS, Avila P, Harding-Theobald E, Wang C, Butte AJ
• Safety of Flexible Sigmoidoscopy in Pregnant Patients with Known or Suspected Inflammatory Bowel Disease.
  Digestive diseases and sciences 2020 Ko MS, Rudrapatna VA, Avila P, Mahadevan U
• PatientExploreR: an extensible application for dynamic visualization of patient clinical history from electronic health records in the OMOP common data model.
  Bioinformatics (Oxford, England) 2019 Glicksberg BS, Oskotsky B, Thangaraj PM, Giangreco N, Badgeley MA, Johnson KW, Datta D, Rudrapatna VA, Rappoport N, Shervey MM, Miotto R, Goldstein TC, Rutenberg E, Frazier R, Lee N, Israni S, Larsen …
• 302 Increasing Appropriate Referrals to Genetic Counseling at the Time of Endoscopy.
  The American Journal of Gastroenterology 2019 Colin Feuille, Patrick Avila, Myung S. Ko, Dena Goldberg, Vivek A. Rudrapatna, Aparajita Singh
• 861 Mind the Gap: A Comparison of the Randomized Clinical Trial Efficacy and Real World Effectiveness of Tofacitinib for the Treatment of Inflammatory Bowel Disease.
  The American Journal of Gastroenterology 2019 Vivek A. Rudrapatna, Atul J. Butte
• 46 – Safety of Flexible Sigmoidoscopy in Pregnant Patients with Inflammatory Bowel Disease – a 10 Year Study.
  Gastroenterology 2019 Myung S. Ko, Vivek Rudrapatna, Patrick Avila, Uma Mahadevan
• Tu1650 – Accuracy of Electronic Health Record Billing Data in the Measurement of Colorectal Cancer Screening Rates.
  Gastroenterology 2019 Vivek Rudrapatna, Benjamin Glicksberg, Patrick Avila, Emily Harding-Theobald, Connie Wang, Atul Butte
• Biosimilars for the Treatment of Inflammatory Bowel Disease.
  Practical gastroenterology 2019 Rudrapatna VA, Velayos F
• ROMOP: a light-weight R package for interfacing with OMOP-formatted electronic health record data.
  JAMIA open 2019 Glicksberg BS, Oskotsky B, Giangreco N, Thangaraj PM, Rudrapatna V, Datta D, Frazier R, Lee N, Larsen R, Tatonetti NP, Butte AJ
• Incidence of and Predictors for Early Discontinuation of Biological Therapies in Veteran Patients with Inflammatory Bowel Disease.
  Inflammatory bowel diseases 2017 Feagins LA, Waljee A, Hou JK, Gu P, Kanjo S, Rudrapatna V, Cipher DJ, Govani S, Gaidos J
• Arterial Thromboses Heralding Cholangiocarcinoma.
  The American journal of medicine 2017 Dunn T, Rudrapatna VA, Hesse S, Sargsyan Z
• Sa1885 Incidence of and Predictors for Early Discontinuation of Biologic Therapies in Veteran Patients with Inflammatory Bowel Disease.
  Gastroenterology 2016 Linda A. Feagins, Akbar K. Waljee, Jason K. Hou, Phillip Gu, Steven Kanjo, Vivek Rudrapatna, Amanda Ellis, Shail M. Govani, Jill Gaidos
• A Jnk-Rho-Actin remodeling positive feedback network directs Src-driven invasion.
  Oncogene 2013 Rudrapatna VA, Bangi E, Cagan RL
• Caspase signalling in the absence of apoptosis drives Jnk-dependent invasion.
  EMBO reports 2013 Rudrapatna VA, Bangi E, Cagan RL
• Drosophila cancer models.
  Developmental dynamics : an official publication of the American Association of Anatomists 2011 Rudrapatna VA, Cagan RL, Das TK