Dr. Michael J. Patton
PhD, MSTP Candidate at the University of Alabama at Birmingham

My goal as a future physician-scientist is to perform bench-to-bedside translational science by extracting clinically actionable information from multi-omic experimental data and electronic medical records. As an undergraduate researcher studying organic synthesis (2009-2013), I never produced enough data to warrant a deep dive into rigorous computational analysis; however, as a post-baccalaureate researcher at the NIH (2014-2017), I found that the application of high-throughput proteomic analysis to a bacterial disease models could produce a significant amount of complex data. Under Dr. Harlan Caldwell’s guidance, I established foundational knowledge of human-microbial interactions through the study Chlamydia trachomatis pathogenesis while gaining deep understanding of how to perform wet lab omic analyses using mass spectrometry. During my three years at the NIH, I discovered a novel C. trachomatis immune avoidance mechanism and performed experiments resulting in the highest proteomic coverage of the organism to date.

After departing the NIH, I began my first year as a MD/PhD student at the University of Alabama at Birmingham (2017-Present) with a desire to learn the informatic expertise required to analyze more complex omic datasets in human disease studies. By the end of my first year of medical school, I realized that my previous experience with high-throughput proteomics at the NIH was pulling me closer to a pursuit of computational methods and translational medical research. As a current graduate student, I committed myself to the pursuit of a PhD in biomedical informatics. With the mentorship of Dr. Matthew Might, I am currently developing a diverse skill-set in electronic medical record analysis, machine learning, outcome modeling, and clinical decision support software development at the University of Alabama at Birmingham Precision Medicine Institute (UAB-PMI).

Publications

MD/PhD Research (2017-Present)

Dissertation

• Patton, MJ. Biomedical Informatic Analysis of Critical Care Outcomes & Chronic Sequelae of SARS-CoV-2 Infection. Order No. 31327440 The University of Alabama at Birmingham, 2024. United States, Alabama: ProQuest. Web. (10/11/2024). DOI: https://www.proquest.com/docview/3101965836

Published Manuscripts

• Patton, MJ, Benson D, Robison, SW, Raval D, Locy ML, Patel K, Grumley S, Levitan EB, Morris P, Might M, Gaggar A, Erdmann N. Characteristics and Determinants of Pulmonary Long COVID. Journal of Clinical Investigation Insight. 2024. 23:e177518. DOI: 10.1172/jci.insight.177518 PMID: 38652535
• Patton, MJ, Gaggar, A, Might, M, Erdmann, N, Orihuela, CJ, & Harrod, KS. Community-Acquired Bacterial Co-infections and COVID-19. Physiological Reviews. 2024. 104(1):1-21. DOI: 10.1152/physrev.00010.2023 PMID: 37589392
• Patton, MJ & Liu, VX. Predictive modeling using artificial intelligence and machine learning algorithms on electronic health record data. Critical Care Clinics. 2023. 39(4):647-673. DOI: 10.1016/j.ccc.2023.02.001 PMID: 37704332
• Fortmann, SD† & Patton, MJ†, Frey, BF, Tipper, JL, Reddy, SB, Vieira, CP, Hanumanthu, VS, Sterrett, S, Floyd, JL, Prasad, R, Zucker, JD, Crouse, AB, Huls, F, Chkheidze, R, Li, P, Erdmann, N, Harrod, KS, Gaggar, A, Goepfert, PA, Grant, MB, Might, M. Circulating SARS-CoV-2+ Megakaryocytes Associate with Severe Viral Infection in COVID-19. Blood Advances. 2023. 8;7(15):4200-4214. DOI: 10.1182/bloodadvances.2022009022 PMID: 36920790
• Patton, MJ, Orihuela, CJ, Harrod, KS, Bhuiyan, MAN, Dominic, P, Kevil, CG, Fort, D, Liu, VX, Farhat, M, Koff, JL, Lal, CV, Gaggar, A, Richter, RP, Erdmann, N, Might, M, & Gaggar, A. COVID-19 bacteremic co-infection is a major risk factor for mortality, ICU admission, and mechanical ventilation. Critical Care. 2023. 27(1), 34. DOI: 10.1186/s13054-023-04312-0 PMID: 36691080
• Foksinska, A, Crowder, CM, Crouse, AB, Henrikson, J, Byrd, WE, Rosenblatt, G, Patton, MJ, He, K, Tran-Nguyen, TK, Zheng, M, Ramsey, SA, Amin, N, Osborne, JD, UAB Precision Medicine Institute, & Might, M. The precision medicine process for treating rare disease using the artificial intelligence tool mediKanren. Frontiers in Artificial Intelligence. 2022. 5, 910216. DOI: 10.3389/frai.2022.910216 PMID: 36248623
• Prasad, R, Patton, MJ, Floyd, JL, Fortmann, S, DuPont, M, Harbour, A, Wright, J, Lamendella, R, Stevens, BR, Oudit, GY, & Grant, MB. Plasma Microbiome in COVID-19 Subjects: An Indicator of Gut Barrier Defects and Dysbiosis. International Journal of Molecular Sciences. 2022. 23(16):9141. DOI: 10.3390/ijms23169141 PMID: 36012406

Published Abstracts

• Almunaifer, AI, Sasse, K, He, K, Patton, MJ, Vong, CDR, Nadimpalli, SR, Byrd, W, Osborne, JD. Addressing Treatment-Relevance in Biomedical Relation Extraction. International Conference on Functional Programming Series on Declarative Programming in Biology and Medicine (ICFP-DeclMed). 2023. Conference Abstract Link: icfp23.sigplan.org/Addressing-Treatment-Relevance-in-Biomedical-Relation-Extraction
• Patton, MJ, Liu, VX, Might, M. Temporal Analysis of Biomarker, Severity-of-Illness Score, and Machine Learning Model Performance for Sepsis Prediction. 42nd International Symposium on Intensive Care and Emergency Medicine (ISICEM). 2023. Critical Care, 27(S1):72, P131. DOI: 10.1186/s13054-023-04377-x PMCID: PMC10268394
• Patton, MJ, Erdmann, N, Harrod, KS, Gaggar, A, Orihuela, CJ, Crouse, A, Might M. Culture Status Improves Respiratory Failure Prediction in COVID-19+ Sepsis Patients. 41st international symposium on intensive care and emergency medicine (ISICEM). 2022. Critical Care, 26(S1):26, P094. DOI: 10.1186/s13054-022-03927-z PMCID: PMC8948467
• Greer, R, Song, Y, Patton, MJ, Might, M, Harrod, K, Petit, CM, & Song, Y. Identification of FDA Approved Antiviral Drugs for COVID-19 Treatment using Unbiased Virtual Screening. Biophysical Journal. 2021. 120(3), 204a. DOI: 10.1016/j.bpj.2020.11.1394 PMCID: PMC7879731
• Byrd, W, Rosenblatt, G, Patton, MJ, Might, M. mediKanren: A System for Bio-medical Reasoning. International Conference on Functional Programming (ICFP) Series on miniKanren. 2020. Conference Abstract Link: icfp20.sigplan.org/mediKanren-A-System-for-Bio-medical-Reasoning

NIH Post-Baccalaureate Research (2014-2017)

Published Manuscripts

• Lei, L, Yang, C, Patton, MJ, Smelkinson, M, Dorward, D, Ma, L, Karanovic, U, Firdous, S, McClarty, G, & Caldwell, HD. A Chlamydial Plasmid-Dependent Secretion System for the Delivery of Virulence Factors to the Host Cytosol. MBio. 2021. e0117921. DOI: 10.1128/mBio.01179-21 PMID: 34101486
• Yang, C, Briones, M, Chiou, J, Lei, L, Patton, MJ, Ma, L, McClarty, G, & Caldwell, HD. Chlamydia trachomatis Lipopolysaccharide Evades the Canonical and Noncanonical Inflammatory Pathways To Subvert Innate Immunity. MBio. 2019. 10(2). DOI: 10.1128/mBio.00595-19 PMID: 31015326
• Patton, MJ, Chen, CY, Yang, C, McCorrister, S, Grant, C, Westmacott, G, Yuan, XY, Ochoa, E, Fariss, R, Whitmire, WM, Carlson, JH, Caldwell, HD, & McClarty, G. Plasmid Negative Regulation of CPAF Expression Is Pgp4 Independent and Restricted to Invasive Chlamydia trachomatis Biovars. MBio. 2018. 9(1). DOI: 10.1128/mBio.02164-17 PMID: 29382731
• Yang, C, Kari, L, Sturdevant, GL, Song, L, Patton, MJ, Couch, CE, Ilgenfritz, JM, Southern, TR, Whitmire, WM, Briones, M, Bonner, C, Grant, C, Hu, P, McClarty, G, & Caldwell, HD. Chlamydia trachomatis ChxR is a transcriptional regulator of virulence factors that function in in vivo host-pathogen interactions. Pathogens and Disease. 2017. 75(3). DOI: 10.1093/femspd/ftx035 PMID: 28369275
• Patton, MJ, McCorrister, S, Grant, C, Westmacott, G, Fariss, R, Hu, P, Zhao, K, Blake, M, Whitmire, WM, Yang, C, Caldwell, HD, & McClarty, G. Chlamydial Protease-Like Activity Factor and Type III Secreted Effectors Cooperate in Inhibition of p65 Nuclear Translocation. MBio. 2016. 7(5). DOI: 10.1128/mBio.01427-16 PMID: 27677792

Presentations

Oral Presentations

• Patton, MJ, Benson, D, Dhaval, R, Patel K, Morris, P, Might M, Erdmann, N, Gaggar, A. Determinants of Pulmonary Post-acute Sequelae of SARS-COV-2 (PASC): A Single-Center Retrospective Study. Keystone Symposium on Long COVID and Post Acute Sequalae of SARS-CoV-2 (PASC): Pathogenesis and Treatment. August 27-30th, 2023, Santa Fe, New Mexico
• Patton, MJ & Might, M. Has Machine Learning Made a Difference? A Retrospective Analysis of In-Hospital Mortality Prediction. Symposium on Artificial Intelligence and Learning Health Systems (SAIL). May 9-12th, 2023, San Juan, Puerto Rico
• Patton, MJ, Orihuela, CJ, Harrod, KS, Bhuiyan, MAN, Dominic, P, Kevil, CG, Fort, D, Liu, VX, Farhat, M, Koff, JL, Lal, CV, Gaggar, A, Richter, RP, Erdmann, N, Might, M, Gaggar, A. COVID-19 bacteremic co-infection is a major risk factor for mortality, ICU admission, and mechanical ventilation. American Medical Informatics Association (AMIA) Informatics Summit. March 13-16th, 2023, Seattle, Washington

Poster Presentations

• Patton, MJ, Huls, F, LeBlanc, K, Cole, Sessions, Might, M. Automating clinical coding of HPO for rare and undiagnosed diseases with large language models via ontological descent. Symposium on Artificial Intelligence and Learning Health Systems (SAIL). May 6-9th, 2024, San Juan, Puerto Rico. DOI: https://sail.health/wp-content/uploads/2024/05/Poster-8-Patton.pdf
• Patton, MJ & Might, M. Has Machine Learning Made a Difference? A Retrospective Analysis of In-Hospital Mortality Prediction. Symposium on Artificial Intelligence and Learning Health Systems (SAIL). May 9-12th, 2023, San Juan, Puerto Rico. DOI: https://sail.health/wp-content/uploads/2023/11/18-SAIL_poster_Patton.pdf
• Patton, MJ, Liu, VX, Might, M. Temporal Analysis of Biomarker, Severity-of-Illness Score, and Machine Learning Model Performance for Sepsis Prediction. 42nd International Symposium on Intensive Care and Emergency Medicine (ISICEM). March 21-24th, 2023, Brussels, Belgium
• Patton, MJ, Erdmann, N, Harrod, KS, Gaggar, A, Orihuela, CJ, Crouse, A, Might M. Culture Status Improves Respiratory Failure Prediction in COVID-19+ Sepsis Patients. 41st Symposium on Intensive Care and Emergency Medicine (ISICEM). March 22-25th, 2022, Brussels, Belgium
• Patton, MJ, Chen, CY, Yang, C, McCorrister, S, Grant, B, Westmacott, G, Yuan, XY, Ochoa, E, Fariss, R, Whitmire, WM, Carlson, JH, Caldwell, HD, McClarty, G. Comparative Proteomics Reveals New Plasmid Regulated Chlamydia trachomatis Virulence Factors. University of Alabama at Birmingham (UAB) Medical Student Research Day. November 13th, 2017, Birmingham, Alabama
• Patton, MJ, McKinley CJ, Discolo CA, Deardorff, D. An Enantioselective Synthesis of Cymbalta. Amgen Undergraduate Research Scholarship Conference. May, 2013, Thousand Oaks, California

Conferences Attended

• Symposium on Artificial Intelligence and Learning Health Systems (SAIL). May 6-9th, 2024, San Juan, Puerto Rico
• Keystone Symposium on Long COVID and Post Acute Sequalae of SARS-CoV-2 (PASC): Pathogenesis and Treatment, August 27-30th, 2023, Santa Fe, New Mexico
• Symposium on Artificial Intelligence and Learning Health Systems (SAIL). May 9-12th, 2023, San Juan, Puerto Rico
• 42nd International Symposium on Intensive Care and Emergency Medicine (ISICEM), March 21-24th, 2023, Brussels, Belgium
• American Medical Informatics Association (AMIA) Informatics Summit. March 13-16th, 2023, Seattle, Washington
• 41st Symposium on Intensive Care and Emergency Medicine (ISICEM). March 22-25th, 2022, Brussels, Belgium
• American Medical Informatics Association (AMIA) Virtual Annual Symposium. November 14-18th, 2020 (Virtual)
• International Conference on Functional Programming (ICFP) Series on miniKanren. August 27th, 2020 (Virtual)
• Southeastern Medical Scientist Symposium (SEMSS). November 10-11th, 2018, Nashville, Tennessee

Press & News Releases

• University of Alabama at Birmingham Featured Scientific Discovery (July, 2023): COVID-19: Bacterial co-infection is a major risk factor for death, ICU admission and mechanical ventilation
• New England Journal of Medicine Scholarship for Presentation at the Symposium on Artifical Intelligence and Learning Health Systems (May, 2023): Patton receives NEJM scholarship for SAIL

Employment, Education, & Awards

MD/PhD Candidate in the University of Alabama Medical Scientist Training Program (2017-Present)

University of Alabama at Birmingham (UAB)

• Analyzed electronic health record data from multiple institutions (Cerner, EPIC systems)
• Performed risk factor and outcome modeling analyses for acute COVID-19 outcomes and chronic post-COVID symptoms
• Programming Skills
  • R
  • Python
  • SparkR and PySpark
  • SQL
  • Racket
  • Scheme

NIH Intramural Research Training Award Research (IRTA) Scholar (2014-2017)

National Institute of Allergy and Infectious Diseases (NIAID)

• Performed experiments analyzing host-bacterial interactions of the human pathogen Chlamydia trachomatis. Focal points of my two publications were the chlamydial plasmid and the putative virulence factor CPAF, the chlamydial protease-like activity factor, and their respective functions in host immune avoidance and the chlamydial life cycle.
• Laboratory Skills
  • High-throughput Proteomic Mass Spectrometry (Q Exactive™ Hybrid Quadrupole-Orbitrap)
  • Confocal Microscopy (Zeiss LSM 700 & 880 Confocal Airyscan Detection™)
  • Bacterial Cloning
  • Cell/Viral/Bacterial Culture & Sterile Technique
  • Flow Cytometry (BD LSRII - Quad/IRF)
  • DNA/RNA purification, PCR, qRT-PCR
  • ELISA Assays
  • 1D/2D Western Blotting
  • Flow Cytometry (8-channel)

Fulbright Scholar (2013-2014)

United States-India Educational Foundation (USIEF), Chennai India

• Primary and Secondary School Teacher for English at the Hindu Senior Secondary School
• Tamil language training for the duration of the grant
• Presented English, Public Health, and American History and Culture seminars for after school youth programs in both urban and rural Tamil Nadu

Occidental College (2009-2013)

Bachelor of Arts (B.A.), Chemistry

• Undergraduate laboratory researcher for Dr. Donald Deardorff
• Performed a novel organic synthesis of the commercially sold pharmaceutical product Duloxetine, (marketed as Cymbalta®)
• Laboratory Skills
  • Nuclear Magnetic Resonance Imaging (Carbon & Proton 1-D/2-D Bruker 300™)
  • High Performance, Column, Radial, & Thin-layer Chromatography
  • Gas Chromatography Mass Spectrometry (GC-MS)
  • Infrared, Fluorescent & Raman Spectroscopy
  • Liquid-Phase Polarimetry
• Organic Chemistry Tutor
  • Led two-hour tutor sessions for undergraduate organic chemistry students twice a week
  • Collaborated with other facilitators in a team environment to create original practice exams for students

Contact Me

You can reach me at:

• Email: mjpatton@uab.edu
• LinkedIn: https://www.linkedin.com/in/michael-patton-uab-md-phd/
• ResearchGate: https://www.researchgate.net/profile/Michael_Patton9
• ORCID: https://orcid.org/0000-0001-5056-6043
• PubMed: https://pubmed.ncbi.nlm.nih.gov/?size=200&term=Patton+MJ&cauthor_id=36012406
• UAB Precision Medicine Institute: https://www.uab.edu/medicine/pmi/our-team
• UAB Medical Scientist Training Program: https://www.uab.edu/medicine/mstp/directories/current-students

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