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Dustin Daniel Flannery, DO, MSCE
Dustin Daniel Flannery
Assistant Professor of Pediatrics

Dr. Flannery's research interests are perinatal infectious diseases and neonatal antimicrobial resistance and stewardship.



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Dustin D. Flannery, DO, MSCE, is an attending physician at Children’s Hospital of Philadelphia and CHOP Newborn Care at Pennsylvania Hospital, an assistant professor of Pediatrics at the Perelman School of Medicine at the University of Pennsylvania, and a core faculty member in the Clinical Futures, a CHOP Research Institute Center of Emphasis. He is a graduate of the Pediatric Hospital Epidemiology and Outcomes Research Training (PHEOT) program managed by the Clinical Futures, and the Master of Science in Clinical Epidemiology (MSCE) program at the University of Pennsylvania.

Dr. Flannery received a Doctor of Osteopathic Medicine degree from the Philadelphia College of Osteopathic Medicine and a Bachelor of Science with Honors from Virginia Tech. After completing a residency and chief residency in Pediatrics at Alfred I. DuPont Hospital for Children/Thomas Jefferson University Hospital, he completed a fellowship in Neonatal-Perinatal Medicine at CHOP.

Dr. Flannery’s research interests are neonatal infectious diseases and antimicrobial stewardship. His current research projects involve 1) analyzing antimicrobial resistance patterns in neonatal intensive care units across the country; 2) analyzing contemporary maternal and neonatal seroepidemiology; and 3) identifying meaningful metrics of neonatal antibiotic use for more accurate inter-hospital comparison.

He has received research funding from CHOP, the National Institute of Child Health and Human Development (T32), the Agency for Healthcare Research and Quality (K08), and the Centers for Disease Control and Prevention.

Education and Training

BS, Virginia Tech ((Nutritional Biochemistry), 2007

DO, Philadelphia College of Osteopathic Medicine, 2011

Internship, Nemours Alfred I DuPont Hospital/Jefferson Medical College (Pediatrics), Philadelphia

Residency, Nemours Alfred I DuPont Hospital/Jefferson Medical College (Pediatrics, Chief Resident), Philadelphia

Fellowship, Children's Hospital of Philadelphia (Neonatal-Perinatal Medicine, Chief Fellow)

MSCE, Perelman School of Medicine, University of Pennsylvania, 2019

Titles and Academic Titles

Attending Neonatologist

Assistant Professor of Pediatrics, Perelman School of Medicine, University of Pennsylvania

Professional Memberships

American Academy of Pediatrics, 2011

Liaison, Section on Breastfeeding/Section on Pediatric Trainees, 2016-2018

Academic Pediatric Association, 2013-

Pediatric Infectious Diseases Society, 2013-

Pediatric Committee on Antimicrobial Stewardship, 2018-

Society for Pediatric Research, 2015-

CDC/VON Antimicrobial Stewardship Special Interest Group, 2018-

Society for Healthcare Epidemiology of America, 2018-

International Society of Evidence-Based Neonatology, 2018-

Professional Awards

Antimicrobial Stewardship Fellowship Award, Pediatric Infectious Diseases Society, 2016

Quality and Patient Safety Honorable Mention: Supporting Premature Infant Nutrition (SPIN), Penn Medicine Clinical Effectiveness and Quality Improvement Initiative, 2016

Trainee Travel Grant Award, Eastern Society for Pediatric Research Meeting, 2017

Excellence in Clinical Research Award, Children’s Hospital of Philadelphia Research Institute, 2017

Thomas Boggs Perinatal-Neonatal Fellow Research Award Finalist, Philadelphia Perinatal Society, 2018

Young Investigator Coaching Program (Coach: Dr. Thomas Newman), Society for Pediatric Research, 2019

Trainee Travel Grant Award, Pediatric Academic Societies Meeting, 2019

Alumni Professional Development Grant Award, Philadelphia College of Osteopathic Medicine Alumni Association, 2019

Neonatal Abstinence Syndrome Quality Care Subaward: Pennsylvania Hospital Newborn Medicine, Pennsylvania Perinatal Quality Collaborative, 2020

Relationship Based Care Physician Award, Shared Governance Advisory Council and Nursing Leadership, Pennsylvania Hospital, 2021

Publication Highlights

Active Grants/Contracts

Identifying Meaningful Metrics of Neonatal Antibiotic Use

  • Agency for Health Research and Quality K08
  • 2020-2025
  • The purpose of this pharmacoepidemiology study is to identify meaningful metrics of neonatal antibiotic use in order to allow hospitals and stakeholders to pinpoint antibiotic utilization practices that should be emulated or avoided, and ultimately improve the safety and quality of neonatal care.
  • PI: Dustin Flannery, DO, MSCE

Burden of Neonatal Antimicrobial Resistance Across the United States

  • K-Readiness Pilot Grant, Children’s Hospital of Philadelphia
  • 2018-2021
  • The objective of this study is to determine the epidemiology of bacterial antibiotic resistance among a large sample of infants admitted to NICUs across the United States.
  • PI: Dustin Flannery, DO, MSCE

Maternal and Neonatal Group B Streptococcus Seroepidemiology

  • Centers for Disease Control and Prevention
  • 2019-2021
  • The purpose of this study is to determine the proportion of pregnant American women who have naturally occurring, serotype-specific antibody to Group B Streptococcus.
  • Role: Co-investigator / Project manager (PI:  Karen Puopolo, MD, PhD)

Perinatal COVID-19 in the United States: Surveillance and Epidemiology

  • Centers for Disease Control and Prevention
  • 2020-2021
  • This study will utilize a national perinatal COVID-19 registry to describe maternal and newborn demographic and clinical characteristics associated with maternal COVID-19 at the time of birth, and the incidence of perinatal and postnatal transmission of SARS-CoV-2 from mothers to their newborns.
  • Role: Co-investigator (PI: Karen Puopolo, MD, PhD)

Maternal and Neonatal SARS-CoV-2 Seroepidemiology

  • Children’s Hospital of Philadelphia (Foerderer Award)
  • 2020-2021
  • This pilot grant will assess overall seroprevalence among the women giving birth in two maternity centers in Philadelphia and specifically will estimate the placental transfer of antibody at different stages of maternal infection and at different gestational ages.
  • Role: Co-investigator (PI: Karen Puopolo, MD, PhD)