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Dustin D. Flannery, DO, MSCE
Dustin D. Flannery
Physician Scientist

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



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

Dr. Flannery's current research projects involve:

  • analyzing antimicrobial resistance patterns in neonatal intensive care units across the country
  • analyzing contemporary maternal and neonatal Group B Streptococcus seroepidemiology
  • identifying meaningful metrics of neonatal antibiotic use for more accurate inter-hospital comparison.

Dr. Flannery received a Doctor of Osteopathic Medicine degree from the Philadelphia College of Osteopathic Medicine and a bachelor's 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, he completed a fellowship in Neonatal-Perinatal Medicine at CHOP.

Education and Training

BS, Virginia Tech, Blacksburg, VA

DO,  Philadelphia College of Osteopathic Medicine, Philadelphia, PA

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

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

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

Board Certification, Pediatrics

MS in Clinical Epidemiology (MSCE), University of Pennsylvania, Philadelphia, PA

Titles and Academic Titles

Physician Scientist

Attending Neonatologist, CHOP Newborn Care at Pennsylvania Hospital

Instructor of Pediatrics, Perelman School of Medicine at the University of Pennsylvania

Professional Memberships

Fellow American Academy of Pediatrics, 2011 –

Member, Academic Pediatric Association, 2013 –

Member, Pediatric Infectious Diseases Society (PIDS), 2013 –

Member, Society for Pediatric Research, 2015 –

Member, Philadelphia Perinatal Society, 2015 –

Member, Society for Healthcare Epidemiology of America, 2018 –

Member, PIDS Pediatric Committee on Antimicrobial Stewardship, 2018 –

Faculty, CDC/VON Antimicrobial Stewardship Special Interest Group, 2018 –

Member, Pennsylvania Perinatal Quality Care Collaborative, 2019 –

Member, Plan of Safe Care working group, Philadelphia Department of Public Health, 2019 –

Professional Awards

Section on Infectious Diseases Travel Grant Award, American Academy of Pediatrics, 2015

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

Publication Highlights

Flannery DD, Gouma S, Dhudasia MB, Mukhopadhyay S, Pfeifer MR, Woodford EC, Gerber JS, Arevalo CP, Bolton MJ, Weirick ME, Goodwin EC, Anderson EM, Greenplate AR, Kim J, Han N, Pattekar A, Dougherty J, Kuthuru O, Mathew D, Baxter AE, Vella LA, Weaver J, Verma A, Leite R, Morris JS, Rader DJ, Elovitz MA, Wherry EJ, Puopolo KM, Hensley SE. SARS-CoV-2 seroprevalence among parturient women in Philadelphia. Sci Immunol. 2020 Jul; 5(49):eabd5709. PubMed PMID: 32727884
Flannery DD, Mukhopadhyay S, Jensen EA, Gerber JS, Passarella MR, Dysart K, Aghai ZH, Greenspan J, Puopolo KM. Influence of Patient Characteristics on Antibiotic Use Rates Among Preterm Infants. J Pediatric Infect Dis Soc. 2020 Mar; doi: 10.1093/jpids/piaa022. [Epub ahead of print] PubMed PMID: 32170951.
Flannery DD, Dysart K, Cook A, Greenspan J, Aghai ZH, Jensen EA. Association between early antibiotic exposure and bronchopulmonary dysplasia or death. J Perinatol. 2018 Sep; 38(9):1227-1234. Epub 2018 Jun 13. PubMed PMID: 29895965; PubMed Central PMCID: PMC6195849
Flannery DD, Ross RK, Mukhopadhyay S, Tribble AC, Puopolo KM, Gerber JS. Temporal Trends and Center Variation in Early Antibiotic Use Among Premature Infants. JAMA Netw Open. 2018 May; 1(1):e180164. doi: 10.1001/jamanetworkopen.2018.0164. PubMed PMID: 30646054; PubMed Central PMCID: PMC6324528
Flannery DD, Swami S, Chan S, Eppes S. Prescriber perceptions of a pediatric antimicrobial stewardship program. Clin Pediatr (Phila). 2014 Jul; 53(8):747-50. PubMed PMID: 24676643

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
  • 2018-2020
  • 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
  • 2019-2020
  • 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)