Justin Silverman
Assistant Professor of Information Sciences and Technology
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E375 Westgate
University Park, PA - jds6696@psu.edu
- 814-863-8304
Research Summary
Statistical methods for the analysis of biomedical data (or any other interesting data/questions)
Huck Graduate Students
Huck Affiliations
Links
Most Recent Publications
Analysis and visualization of epidemics on the timescale of burden: derivation and application of Epidemic Resistance Lines (ERLs) to COVID-19 outbreaks in the US
Alex Washburne, Justin Silverman, medRxiv
From pre-test and post-test probabilities to medical decision making
Michelle Pistner Nixon, Farhani Momotaz, Claire Smith, Jeffrey S. Smith, Mark Sendak, Christopher Polage, Justin D. Silverman, 2024, BMC Medical Informatics and Decision Making
Changes in the type 2 diabetes gut mycobiome associate with metformin treatment across populations
Emily Van Syoc, Michelle Nixon, Justin Silverman, Yuhong Lou, Yuhong Luo, Frank Gonzalez, Ilze Elbere, Janis Klovins, Andrew D. Patterson, Connie Rogers, Erika Ganda, 2024, mBio
Investigating antibiotic free feed additives for growth promotion in poultry: effects on performance and microbiota
A Fonseca, Ana Fonesca, Sophia Kenney, Emily Van Syoc, Stephanie Bierly, F Dini Andreote, Francisco Dini-Andreote, Justin Silverman, J Boney, Erika Ganda, 2024, Poultry Science on p. 103604
Use of intrauterine dextrose as an alternative to systemic antibiotics for treatment of clinical metritis in dairy cattle: a microbiome perspective
Jennine Lection, Emily Van Syoc, Asha Miles, Julia Hamilton, Marcela Martinez, Santiago Bas, Justin Silverman, Adrian Barragan, Erika Ganda, 2024, Frontiers in Veterinary Science
Addressing erroneous scale assumptions in microbe and gene set enrichment analysis
Kyle C. McGovern, Michelle Pistner Nixon, Justin D. Silverman, 2023, PLoS Computational Biology
Ancient dental calculus reveals oral microbiome shifts associated with lifestyle and disease in Great Britain
Abigail Gancz, Andrew Farrer, M Nixon, Sterling Wright, Luis Arriola, Luis Arriola, Christina Alder, Emily Davenport, Christina Adler, Emily R. Davenport, Neville Gully, Neville Gully, Alan Cooper, Alan Cooper, Kate Britton, Kate Britton, Keith Dobney, Keith Dobney, Justin Silverman, Laura Weyrich, Laura S. Weyrich, 2023, Nature Microbiology on p. 2315-2325
Phosphorylation barcodes direct biased chemokine signaling at CXCR3
Dylan S. Eiger, Jeffrey S. Smith, Tujin Shi, Tomasz Maciej Stepniewski, Chia Feng Tsai, Christopher Honeycutt, Noelia Boldizsar, Julia Gardner, Carrie D. Nicora, Ahmed M. Moghieb, Kouki Kawakami, Issac Choi, Chloe Hicks, Kevin Zheng, Anmol Warman, Priya Alagesan, Nicole M. Knape, Ouwen Huang, Justin D. Silverman, Richard D. Smith, Asuka Inoue, Jana Selent, Jon M. Jacobs, Sudarshan Rajagopal, 2023, Cell Chemical Biology on p. 362-382.e8
Race, employment, and the pandemic: An exploration of covariate explanations of COVID-19 case fatality rate variance
Christopher Griffin, Ray Block, Justin D. Silverman, Jason Croad, Robert P. Lennon, 2023, PLoS One
Quantiative Geometric Modeling of Blood Cells from X-ray Histotomograms of Whole Zebrafish Larvae
Maksim Yakovlev, Ke Liang, Carolyn Zaino, Andrew Sugarman, Daniel Vanselow, Andrew Sugarman, Alex Lin, Alex Lin, Patrick La Riviere, Patrick La Riviere, Yuxi Zheng, Justin Silverman, Yuxi Zheng, John Leichty, Justin Silverman, John Liechty, Sharon Huang, S Huang, Keith Cheng, K Cheng, 2023, eLife
Most-Cited Papers
Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England
Nicholas G. Davies, Sam Abbott, Rosanna C. Barnard, Christopher I. Jarvis, Adam J. Kucharski, James D. Munday, Carl A.B. Pearson, Timothy W. Russell, Damien C. Tully, Alex D. Washburne, Tom Wenseleers, Amy Gimma, William Waites, Kerry L.M. Wong, Kevin van Zandvoort, Justin D. Silverman, Karla Diaz-Ordaz, Ruth Keogh, Rosalind M. Eggo, Sebastian Funk, Mark Jit, Katherine E. Atkins, W. John Edmunds, 2021, Science
Establishing microbial composition measurement standards with reference frames
James T. Morton, Clarisse Marotz, Alex Washburne, Justin Silverman, Livia S. Zaramela, Anna Edlund, Karsten Zengler, Rob Knight, 2019, Nature Communications
Allogenic Fecal Microbiota Transplantation in Patients with Nonalcoholic Fatty Liver Disease Improves Abnormal Small Intestinal Permeability: A Randomized Control Trial
Laura Craven, Adam Rahman, Seema Nair Parvathy, Melanie Beaton, Justin Silverman, Karim Qumosani, Irene Hramiak, Rob Hegele, Tisha Joy, Jon Meddings, Brad Urquhart, Ruth Harvie, Charles McKenzie, Kelly Summers, Gregor Reid, Jeremy P. Burton, Michael Silverman, 2020, American Journal of Gastroenterology on p. 1055-1065
A phylogenetic transform enhances analysis of compositional microbiota data
Justin D. Silverman, Alex D. Washburne, Sayan Mukherjee, Lawrence A. David, 2017, eLife
Naught all zeros in sequence count data are the same
Justin D. Silverman, Kimberly Roche, Sayan Mukherjee, Lawrence A. David, 2020, Computational and Structural Biotechnology Journal on p. 2789-2798
Phylogenetic factorization of compositional data yields lineage-level associations in microbiome datasets
Alex D. Washburne, Justin D. Silverman, Jonathan W. Leff, Dominic J. Bennett, John L. Darcy, Sayan Mukherjee, Noah Fierer, Lawrence A. David, 2017, PeerJ
Using influenza surveillance networks to estimate state-specific prevalence of SARS-CoV-2 in the United States
Justin D. Silverman, Nathaniel Hupert, Alex D. Washburne, 2020, Science Translational Medicine
Microbiota responses to different prebiotics are conserved within individuals and associated with habitual fiber intake
Zachary C. Holmes, Max M. Villa, Heather K. Durand, Sharon Jiang, Eric P. Dallow, Brianna L. Petrone, Justin D. Silverman, Pao Hwa Lin, Lawrence A. David, 2022, Microbiome
Short-chain fatty acid production by gut microbiota from children with obesity differs according to prebiotic choice and bacterial community composition
Zachary C. Holmes, Justin D. Silverman, Holly K. Dressman, Zhengzheng Wei, Eric P. Dallow, Sarah C. Armstrong, Patrick C. Seed, John F. Rawls, Lawrence A. David, 2020, mBio on p. 1-15
Human Gut Microbiota Predicts Susceptibility to Vibrio cholerae Infection
Firas S. Midani, Ana A. Weil, Fahima Chowdhury, Yasmin A. Begum, Ashraful I. Khan, Meti D. Debela, Heather K. Durand, Aspen T. Reese, Sai N. Nimmagadda, Justin D. Silverman, Crystal N. Ellis, Edward T. Ryan, Stephen B. Calderwood, Jason B. Harris, Firdausi Qadri, Lawrence A. David, Regina C. Larocque, 2018, Journal of Infectious Diseases on p. 645-653
News Articles Featuring Justin Silverman
Dec 18, 2024
New treatment for dairy cows could help fight antibiotic resistance, study finds
A concentrated sugar solution could be just as effective as antibiotics at treating a common infection in dairy cows, according to a new study led by researchers at Penn State.
Full Article
Apr 12, 2024
Probiotic feed additive boosts growth, health in poultry in place of antibiotics
Antimicrobial resistance is an increasingly serious threat for public health, and the use of antimicrobials in livestock feed has been a major contributing factor in the emergence and spread of antimicrobial resistance to many drugs, according to the U.S. National Institutes of Health.
Full Article
Nov 29, 2023
Study of ancient British oral microbiomes reveals shift following Black Death
The Second Plague Pandemic may have led to oral microbiomes that contribute to modern-day chronic disease, according to new research
Full Article
Jul 19, 2022
Could the Flu Uncover the Next Pandemic?
As the COVID-19 pandemic has raced across the globe and killed millions worldwide, people continue to ask: Could this have gone differently? The early months of 2020 marked a turning point where public health efforts shifted from containing the virus’ spread to mitigating its damage once that was no longer possible. But what if we had known about future surges in infection rates earlier, or had a better sense of the peaks?
Full Article
Sep 20, 2020
Wastewater sampling may give advanced warning of potential COVID-19 outbreaks
Wastewater sampling for coronavirus on campus and in the surrounding community could alert University decision makers to a potential outbreak several days before individuals exhibit symptoms of an infection. The initiative — part of Penn State’s multilayered approach to test, monitor and mitigate for COVID-19 — could enable leaders to take swift actions to minimize the virus’s spread with the goal of helping to protect the health and safety of the community.
Full Article