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Anne G Hoen, PhD

Associate Professor of Epidemiology
Associate Professor of Biomedical Data Science
Associate Professor of Microbiology and Immunology

Biomedical Data Science
Microbiology and Immunology

Molecular and Cellular Biology Graduate Programs
Quantitative Biomedical Sciences


Contact Information:

Dartmouth-Hitchcock Medical Center
One Medical Center Drive
HB 7927
Lebanon NH 03756

Phone: 603-653-6087

Professional Interests:

Dr. Hoen's research focus is on the development of the microbiome in infants and children, and the associations between environmental and dietary exposures, the microbiome, and risk for infectious and other diseases. She has a broad interest in the predictors of disease risk and microbial colonization dynamics in human populations and the environment as reflected in microbial genetic sequence variation and health informatics streams over space and time. Interdisciplinary approaches used in her research include spatial and time-series statistics, population genetics and novel disease surveillance methodologies along with tools from the fields of microbial ecology, molecular epidemiology and landscape epidemiology.

Rotations and Thesis Projects:

Development of novel computational methods for studying the human microbiota
Investigating the environmental drivers of infant intestinal microbiome development
Associations between patterns of infant intestinal microbiome establishment and health outcomes in children
Functional characterization of the developing infant gut microbiota using metabolomics

Grant Information:

K01LM011985: Bioinformatics strategies for early life microbiomics
R01LM012723: Multi-omic functional integration using networks

Courses Taught:

QBS 136 Applied Epidemiologic Methods I
QBS 137 Applied Epidemiologic Methods II


Dr. Hoen completed her PhD in epidemiology and public health at Yale University and received post-doctoral training at Children's Hospital Boston, Harvard Medical School and McGill University. She has broad training in biostatistics, epidemiology and public health with research experience in the evaluation of interventions, understanding infectious disease emergence and spread, and evaluating associations between the microbiome and human health. Her research uses advanced statistical methods as well as informatics and complex systems approaches. Past studies include modeling the timing and spread of influenza to estimate the effects of interventions targeting children, modeling the evolutionary ecology of the Lyme disease agent, Borrelia burgdorferi and characterizing the initial development of the human microbiome in early life and its associations with common exposures and infectious outcomes.

Selected Publications:


Reliability of stool microbiome methods for DNA yields and sequencing among infants and young children.
Antosca K, Hoen AG, Palys T, Hilliard M, Morrison HG, Coker M, Madan J, Karagas MR
Microbiologyopen. 2020 May;9(5):e1018. doi: 10.1002/mbo3.1018. Epub 2020 Mar 12.
PMID: 32166902

Maternal determinants of infant immunity: Implications for effective immunization and maternal-child health.
Pasetti MF, Ackerman ME, Hoen AG, Alter G, Tsang JS, Marchant A
Vaccine. 2020 Jun 9;38(28):4491-4494. doi: 10.1016/j.vaccine.2020.01.056. Epub 2020 Feb 25.
PMID: 32111530

Microbial Communities in Human Milk Relate to Measures of Maternal Weight.
Lundgren SN, Madan JC, Karagas MR, Morrison HG, Hoen AG, Christensen BC
Front Microbiol. 2019;10:2886. doi: 10.3389/fmicb.2019.02886. Epub 2019 Dec 20.
PMID: 31921063

An Integrated Gaussian Graphical Model to evaluate the impact of exposures on metabolic networks.
Lee JW, Moen EL, Punshon T, Hoen AG, Stewart D, Li H, Karagas MR, Gui J
Comput Biol Med. 2019 Nov;114:103417. doi: 10.1016/j.compbiomed.2019.103417. Epub 2019 Aug 31.
PMID: 31521894

Specific class of intrapartum antibiotics relates to maturation of the infant gut microbiota: a prospective cohort study.
Coker MO, Hoen AG, Dade E, Lundgren S, Li Z, Wong AD, Zens MS, Palys TJ, Morrison HG, Sogin ML, Baker ER, Karagas MR, Madan JC
BJOG. 2020 Jan;127(2):217-227. doi: 10.1111/1471-0528.15799. Epub 2019 Jun 5.
PMID: 31006170

Conditional Regression Based on a Multivariate Zero-Inflated Logistic-Normal Model for Microbiome Relative Abundance Data.
Li Z, Lee K, Karagas MR, Madan JC, Hoen AG, O'Malley AJ, Li H
Stat Biosci. 2018 Dec;10(3):587-608. doi: 10.1007/s12561-018-9219-2. Epub 2018 Jul 10.
PMID: 30923584

Does birth mode modify associations of maternal pre-pregnancy BMI and gestational weight gain with the infant gut microbiome?
Singh SB, Madan J, Coker M, Hoen A, Baker ER, Karagas MR, Mueller NT
Int J Obes (Lond). 2020 Jan;44(1):23-32. doi: 10.1038/s41366-018-0273-0. Epub 2019 Feb 14.
PMID: 30765892

Sex-specific associations of infants' gut microbiome with arsenic exposure in a US population.
Hoen AG, Madan JC, Li Z, Coker M, Lundgren SN, Morrison HG, Palys T, Jackson BP, Sogin ML, Cottingham KL, Karagas MR
Sci Rep. 2018 Aug 22;8(1):12627. doi: 10.1038/s41598-018-30581-9. Epub 2018 Aug 22.
PMID: 30135504

Maternal diet during pregnancy is related with the infant stool microbiome in a delivery mode-dependent manner.
Lundgren SN, Madan JC, Emond JA, Morrison HG, Christensen BC, Karagas MR, Hoen AG
Microbiome. 2018 Jul 5;6(1):109. doi: 10.1186/s40168-018-0490-8. Epub 2018 Jul 5.
PMID: 29973274

The premature infant gut microbiome during the first 6 weeks of life differs based on gestational maturity at birth.
Chernikova DA, Madan JC, Housman ML, Zain-Ul-Abideen M, Lundgren SN, Morrison HG, Sogin ML, Williams SM, Moore JH, Karagas MR, Hoen AG
Pediatr Res. 2018 Jul;84(1):71-79. doi: 10.1038/s41390-018-0022-z. Epub 2018 May 23.
PMID: 29795209

View more publications on PubMed