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Faculty Detail    
M.D., Ph.D.
Assistant Professor
Campus Address WP P230 Zip 7331
Phone  (205) 934-6421
Other websites

Undergraduate  Mississippi State University    2000  B.S. (physics) 
Graduate  Massachusetts Institute of Technology    2009  Ph.D. (bioinformatics) 
Medical School  Harvard School of Medicine    2012  M.D. 
Residency  Beth Israel Deaconess Medical Center    2015  Clinical Pathology 
Fellowship  Beth Israel Deaconess Medical Center    2015  Medical Microbiology 

Board Certificate, American Board of Pathology (Clinical Pathology)  2015 
Medical License, State of Alabama  2015 
Medical License, Commonwealth of Massachusetts  2015 

Faculty Appointment(s)
Appointment Type Department Division Rank
Primary  Pathology   Laboratory Medicine Assistant Professor

Biographical Sketch 
Allen Bryan, a native of Columbus, MS, holds a bachelor's in physics (Mississippi State, 2000) and doctorates in medicine (Harvard, 2012) and bioinformatics (MEMP program, MIT, 2009). For his PhD, Dr. Bryan studied under Bonnie Berger, MIT Department of Mathematics and Computer Science-Artificial Intelligence Laboratory (CSAIL), and Susan Lindquist of the MIT Biology Department and the Whitehead Institute. He completed his residency in clinical pathology and fellowship in medical microbiology at Beth Israel Deaconess Medical Center, Boston, MA, in 2015. In July of that same year, Dr. Bryan was board certified in Clinical Pathology by the American Board of Pathology, and in December, he joined the University of Alabama-Birmingham as Instructor in the Department of Pathology.

Society Memberships
Organization Name Position Held Org Link
American Medical Association  Member (since 2011) 
American Medical Informatics Society  Member (since 2012) 
American Society for Clinical Pathology  Member (since 2012) 
American Society for Microbiology  Member (since 2013) 
College of American Pathology  Member (since 2014) 
Academy of Clinical Laboratory Physicians and Scientists  Member (since 2014)  

Research/Clinical Interest
INFECTALYTICS: Quality improvement of laboratory medicine through graph-network analysis & visualization
My primary research interest at present is the improvement of clinical informatics interfaces, particularly analysis and reporting of laboratory data. I am interested in developing incremental improvements to feedback and reporting in a clinical environment with close collaboration between development and active clinicians. INFECTALYTICS, our first major project, utilizes de-identified and warehoused clinical data to identify quality gaps in laboratory practice and utilization. By using graph-network analysis, Bayesian statistics, and data visualizations, quality improvement projects can be identified and tailored to target specific practices. The goal of our software is to advance quality improvement and effectiveness by further encouraging communications between laboratory personnel, clinicians, researchers, and patients.

Selected Publications 
Publication PUBMEDID
Bryan AW Jr, Menke M, Cowen LJ, Lindquist SL, Berger B. BETASCAN: probable beta-amyloids identified by pairwise probabilistic analysis. PLoS Comput Biol. 2009 Mar;5(3):e1000333  19325876 
Bryan AW Jr, Starner-Kreinbrink JL, Hosur R, Clark PL, Berger B. Structure-based prediction reveals capping motifs that inhibit β-helix aggregation. Proc Natl Acad Sci U S A. 2011 Jul 5;108(27):11099-104  21685332 
Bryan AW Jr, O'Donnell CW, Menke M, Cowen LJ, Lindquist S, Berger B. STITCHER: Dynamic assembly of likely amyloid and prion β-structures from secondary structure predictions. Proteins. 2012 Feb;80(2):410-20  22095906 
Bryan A, Youngster I, McAdam AJ. Shiga Toxin Producing Escherichia coli. Clin Lab Med. 2015 Jun;35(2):247-72
Bryan AW Jr, Qian Q, Kirby JE. Photo Quiz: A Man with Fever and Headache. J Clin Microbiol. 2017 Feb;55(2):351. doi: 10.1128/JCM.00193-15  28122992 
Bryan AW Jr, Qian Q, Kirby JE. Answer to February 2017 Photo Quiz. J Clin Microbiol. 2017 Feb;55(2):660-661. doi: 10.1128/JCM.00194-15  28122997 
Bryan AW Jr, Staley EM, Kennell T Jr, Feldman AZ, Williams LA 3rd, Pham HP. Plasma Transfusion Demystified: A Review of the Key Factors Influencing the Response to Plasma Transfusion. Lab Med. 2017 Apr 24. doi: 10.1093/labmed/lmx027  28444398  

clinical informatics, clinical decision support, clinical microbiology, data analytics, data visualization, structural biology, INFECTALYTICS, precision medicine, health informatics