Research

Clinical Science
Meets Data Engineering.

Bridging the gap between bedside medicine and machine learning — building tools that turn ICU data into actionable insight.

Active
Large Scale Identification of Neutropenic Enterocolitis in Acute Leukemia

Leveraging validated LLM methods for unstructured data inputs to identify fiducial points for neutropenic enterocolitis development in pediatric acute leukemia at scale.

NLPLLMOncologyPathology
Active
Causal Inference in Pediatric Critical Care

Applying DoWhy causal inference frameworks and NetworkX DAGs to model temporal relationships in critically ill children. Expanding to broader hemodynamic and pharmacokinetic applications.

Causal InferenceDAGPharmacokinetics
Active
Liver Transplantation Outcomes

Ongoing investigation of perioperative risk factors, mechanical ventilation duration, and post-transplant morbidity in pediatric liver transplant recipients, including the PROVE-ALT scoring model and acute-on-chronic liver failure outcomes.

Liver TransplantPICUOutcomes
Active
Post-Extubation Stridor Prevention

Investigating pharmacologic and clinical strategies to reduce post-extubation stridor in critically ill children, with a focus on high-risk populations and protocol-driven prevention in the PICU.

AirwayExtubationPICU
Active
Extracorporeal Life Support (ECLS) Outcomes

Analysis of clinical outcomes, hemodynamic trajectories, and survival in pediatric patients requiring extracorporeal life support. Example projects include severe asthma requiring ECLS and long-term pulmonary outcomes in ECLS survivors.

ECLSECMOHemodynamicsOutcomes
tflib clinical data pipeline diagram Click to expand

tflib — Clinical Analytics Pipeline

tflib is an open-source Python library built for clinical data engineering in the PICU setting. It wraps Epic EMR extraction, DuckDB feature stores, and publication-quality visualization into a cohesive, reproducible pipeline.

Designed for PHI-compliant environments, tflib provides modular components for cohort construction, KDIGO AKI staging, vasoactive infusion analysis, and LLM-based clinical NLP — all validated against real pediatric ICU data.

Standardized raw data extracts
DuckDB feature store with PHI suppression
Python / pandas clinical transformation layer
AWS Bedrock for PHI-compliant clinical NLP
Altair — publication-quality visualization

This repository is privately maintained. To request access or discuss a collaboration, please contact us by email.

2026
Conference · Session Chair & Panelist
Opportunities in Healthcare AI
Fogarty T
2026 TMC AI Summit
2025
Journal Article · Children
Social Determinants of Health and Clinical Outcomes in Critically Ill Children
Fogarty TP III, et al.
Children, 2025. DOI: 10.3390/children12030390
DOI
2025
Journal Article · Nature Communications
Ultra-low extracorporeal volume microfluidic leukapheresis is safe and effective in a rat model
Iqbal M, McLennan AL, Mukhamedshin A, Dinh MTP, Liu Q, Junco JJ, Fogarty TP III, et al.
Nature Communications, 2025. DOI: 10.1038/s41467-025-57003-5
DOI
2024
Journal Article · Clinical Transplantation
Independent Risk Factors and Economic Burden Associated With Delayed Extubation Following Pediatric Liver Transplantation
Virk MK, Coss-Bu J, Mian MUM, Galvan NTN, Sabapathy D, Castro D, Fogarty T, et al.
Clinical Transplantation, Oct 2024. DOI: 10.1111/ctr.15472
DOI
2024
Journal Article · Pediatric Transplantation
Postoperative outcomes of acute-on-chronic liver failure in infants and children with biliary atresia
Naeem B, Ayub A, Coss-Bu J, Mian MUM, Hernaez R, Fogarty TP, et al.
Pediatric Transplantation, 2024. DOI: 10.1111/PETR.14736
DOI
2024
Journal Article · Pediatric Transplantation
Estimating risk of prolonged mechanical ventilation after liver transplantation in children: PROVE-ALT score
Mian MUM, Kennedy CE, Coss-Bu JA, Fogarty TP III, et al.
Pediatric Transplantation, 2024. DOI: 10.1111/PETR.14623
DOI
2024
Journal Article · Children
Feasibility of Achieving Nutritional Adequacy in Critically Ill Children with Critical Neurological Illnesses
Mansour M, Knebusch N, Daughtry J, Fogarty TP, et al.
Children, Jun 2024. DOI: 10.3390/children11060711
DOI
2024
Journal Article · Children
An In-Depth Look at Nutrition Support and Adequacy for Critically Ill Children with Organ Dysfunction
Knebusch N, Hong-Zhu P, Mansour M, Daughtry JN, Fogarty TP, et al.
Children, Jun 2024. DOI: 10.3390/children11060709
DOI
2024
Conference Abstract · Critical Care Medicine
Blood Culture Stewardship in a Large Clinically Cohorted Pediatric ICU
Bavare A, Niles D, Razavi A, Fogarty T, et al.
Critical Care Medicine, 2024
2024
Conference Abstract · Critical Care Medicine
Nutrition Support Adequacy in Children with Critical Neurologic Illness
Mansour M, Knebusch N, Daughtry J, Fogarty T, et al.
Critical Care Medicine, 2024
2023
Journal Article · Journal of Pharmacy Practice
Sinus Arrest Related to Dexmedetomidine Infusion in an Infant: A Case Report and Review of Current Literature
Dennee A, Fogarty TP, Howard TS, Hunter RB
Journal of Pharmacy Practice, 2023. DOI: 10.1177/08971900231193558
DOI
2022
Journal Article · Pediatric Nephrology
Hemodynamic instability during connection to continuous kidney replacement therapy in critically ill pediatric patients
Thadani S, Fogarty T, Mottes T, Price JF, Srivaths P, Bell C, Akcan-Arikan A
Pediatric Nephrology, 2022. DOI: 10.1007/S00467-022-05424-5
DOI
2022
Journal Article · Pediatric Transplantation
The use of tracheostomy to support critically ill children receiving orthotopic liver transplantation: a single-center experience
Mian MUM, Kennedy C, Fogarty T, et al.
Pediatric Transplantation, 2022. DOI: 10.1111/PETR.14140
DOI
2022
Journal Article · Pediatric Infectious Disease Journal
Management of Extensive Central Nervous System Cladophialophora bantiana Infection in a 9-Year-Old Child
Boguniewicz J, Demmler-Harrison GJ, Lotze TE, Fogarty T, et al.
Pediatric Infectious Disease Journal, 2022. DOI: 10.1097/INF.0000000000003680
DOI

Interested in Collaborating?

We welcome research partnerships, data science collaborations, and clinical informatics projects in pediatric critical care. If you are working on problems at the intersection of clinical medicine and machine learning, reach out.

Get in Touch
tflib pipeline diagram expanded