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J. Silverman · SciRah

Researcher profile · Semantic Scholar

J. Silverman

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J. Silverman — researcher profile on SciRah

h-index: 22
Works: 53
Citations: 4,909

Most-cited papers

Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England
N. Davies, S. Abbott, R. Barnard, C. Jarvis +19 more
2021Science2,353 citations Open access
Semantic Scholar
Establishing microbial composition measurement standards with reference frames
James T. Morton, C. Marotz, Alex D. Washburne, J. Silverman +4 more
2019Nature Communications537 citations Open access
Semantic Scholar
Estimated transmissibility and severity of novel SARS-CoV-2 Variant of Concern 202012/01 in England
N. Davies, S. Abbott, R. Barnard, C. Jarvis +19 more
2020medRxiv361 citations Open access
Semantic Scholar
Allogenic Fecal Microbiota Transplantation in Patients With Nonalcoholic Fatty Liver Disease Improves Abnormal Small Intestinal Permeability: A Randomized Control Trial.
Laura J. Craven, A. Rahman, Seema Nair Parvathy, M. Beaton +13 more
2020American Journal of Gastroenterology284 citations
Semantic Scholar
Microbiota responses to different prebiotics are conserved within individuals and associated with habitual fiber intake
Z. Holmes, Max M. Villa, H. K. Durand, Sharon Jiang +5 more
2021bioRxiv161 citations Open access
Semantic Scholar
Using influenza surveillance networks to estimate state-specific prevalence of SARS-CoV-2 in the United States
J. Silverman, N. Hupert, Alex D. Washburne
2020Science Translational Medicine104 citations Open access
Semantic Scholar
Measuring and mitigating PCR bias in microbiota datasets
J. Silverman, Rachael J. Bloom, Sharon Jiang, H. K. Durand +3 more
2021PLoS Comput. Biol.97 citations Open access
Semantic Scholar
Dynamic linear models guide design and analysis of microbiota studies within artificial human guts
J. Silverman, H. K. Durand, Rachael J. Bloom, Sayan Mukherjee +1 more
2018Microbiome91 citations Open access
Semantic Scholar
Naught all zeros in sequence count data are the same
J. Silverman, Kimberly Roche, Sayan Mukherjee, L. David
2018bioRxiv90 citations Open access
Semantic Scholar
Short-Chain Fatty Acid Production by Gut Microbiota from Children with Obesity Differs According to Prebiotic Choice and Bacterial Community Composition
Z. Holmes, J. Silverman, H. Dressman, Zheng-Zheng Wei +5 more
2020mBio83 citations Open access
Semantic Scholar
Naught all zeros in sequence count data are the same.
J. Silverman, Kimberly Roche, Sayan Mukherjee, L. David
2020Computational and Structural Biotechnology Journal75 citations Open access
Semantic Scholar
Human Gut Microbiota Predicts Susceptibility to Vibrio cholerae Infection
Firas S Midani, Ana A. Weil, F. Chowdhury, Y. Begum +13 more
2018Journal of Infectious Diseases68 citations Open access
Semantic Scholar
Modeling the temporal dynamics of the gut microbial community in adults and infants
L. Shenhav, O. Furman, Leah Briscoe, Mike Thompson +3 more
2017bioRxiv55 citations Open access
Semantic Scholar
Interindividual Variation in Dietary Carbohydrate Metabolism by Gut Bacteria Revealed with Droplet Microfluidic Culture
Max M. Villa, Rachael J. Bloom, J. Silverman, H. K. Durand +6 more
2020mSystems53 citations Open access
Semantic Scholar
Phylofactorization: a graph partitioning algorithm to identify phylogenetic scales of ecological data
Alex D. Washburne, J. Silverman, James T. Morton, D. Becker +4 more
2019Ecological Monographs48 citations Open access
Semantic Scholar
Bayesian Multinomial Logistic Normal Models through Marginally Latent Matrix-T Processes
J. Silverman, Kimberly Roche, Z. Holmes, L. David +1 more
2019Journal of machine learning research44 citations
Semantic Scholar
Multiomics implicate gut microbiota in altered lipid and energy metabolism in Parkinson’s disease
Pedro A. B. Pereira, D. Trivedi, J. Silverman, I. Duru +3 more
2021npj Parkinson's Disease41 citations Open access
Semantic Scholar
Allogenic Fecal Microbiota Transplantation in Patients With Nonalcoholic Fatty Liver Disease Improves Abnormal Small Intestinal Permeability: A Randomized Control Trial.
Laura J. Craven, A. Rahman, Seema Nair Parvathy, M. Beaton +13 more
2020American Journal of Gastroenterology33 citations
Semantic Scholar
The Pediatric Obesity Microbiome and Metabolism Study (POMMS): Methods, Baseline Data, and Early Insights
J. McCann, Nathan A. Bihlmeyer, Kimberly Roche, C. Catherine +21 more
2020medRxiv33 citations Open access
Semantic Scholar
DNA Extraction and Host Depletion Methods Significantly Impact and Potentially Bias Bacterial Detection in a Biological Fluid
E. Ganda, Kristen L. Beck, Niina Haiminen, J. Silverman +5 more
2020bioRxiv31 citations Open access
Semantic Scholar
Phylofactorization: a graph-partitioning algorithm to identify phylogenetic scales of ecological data
Alex D. Washburne, J. Silverman, James T. Morton, D. Becker +4 more
2017bioRxiv31 citations Open access
Semantic Scholar
Impacts of the COVID‐19 pandemic on pharmaceuticals in wastewater treated for beneficial reuse: Two case studies in central Pennsylvania
Kathryn R Hayden, Matthew J. Jones, K. Elkin, Michael J. Shreve +10 more
2022Journal of Environmental Quality23 citations Open access
Semantic Scholar
Phylogenetic factorization of compositional data yields lineage-level associations in microbiome datasets
Alex D. Washburne, J. Silverman, J. Leff, Dominic J. Bennett +4 more
2016bioRxiv23 citations Open access
Semantic Scholar
Phosphorylation barcodes direct biased chemokine signaling at CXCR3
D. Eiger, Jeffrey S. Smith, Tu-Jin Shi, Tomek Stepniewski +20 more
2023Cell Chemical Biology21 citations Open access
Semantic Scholar
Statistical Considerations in the Design and Analysis of Longitudinal Microbiome Studies
J. Silverman, L. Shenhav, E. Halperin, Sayan Mukherjee +1 more
2018bioRxiv21 citations Open access
Semantic Scholar
Scale reliant inference
M. Nixon, Kyle C. McGovern, Maxwell A. Konnaris, J. Letourneau +4 more
2022Annals of Applied Statistics20 citations Open access
Semantic Scholar
Using ILI surveillance to estimate state-specific case detection rates and forecast SARS-CoV-2 spread in the United States
J. Silverman, N. Hupert, Alex D. Washburne
2020medRxiv19 citations Open access
Semantic Scholar
Decoding the olfactory map through targeted transcriptomics links murine olfactory receptors to glomeruli
Kevin W. Zhu, S. Burton, Maíra H. Nagai, J. Silverman +3 more
2022Nature Communications18 citations Open access
Semantic Scholar
Phosphorylation barcodes direct biased chemokine signaling at CXCR3
D. Eiger, Jeffrey S. Smith, Tu-Jin Shi, Tomek Stepniewski +19 more
2023bioRxiv14 citations Open access
Semantic Scholar
Changes in the type 2 diabetes gut mycobiome associate with metformin treatment across populations
Emily P. Van Syoc, M. Nixon, J. Silverman, Yuhong Luo +6 more
2023bioRxiv14 citations Open access
Semantic Scholar
High-throughput isolation and culture of human gut bacteria with droplet microfluidics
Max M. Villa, Rachael J. Bloom, J. Silverman, H. K. Durand +5 more
2019bioRxiv14 citations Open access
Semantic Scholar
Addressing erroneous scale assumptions in microbe and gene set enrichment analysis
Kyle C. McGovern, M. Nixon, J. Silverman
2023bioRxiv13 citations Open access
Semantic Scholar
Measuring and Mitigating PCR Bias in Microbiome Data
J. Silverman, Rachael J. Bloom, Sharon Jiang, H. K. Durand +2 more
2019bioRxiv10 citations Open access
Semantic Scholar
Scalable estimation of microbial co-occurrence networks with Variational Autoencoders
J. Morton, J. Silverman, G. Tikhonov, H. Lähdesmäki +1 more
2021bioRxiv7 citations Open access
Semantic Scholar
A phylogenetic transform enhances analysis of compositional microbiota data
J. Silverman, Alex D. Washburne, Sayan Mukherjee, L. David
2016bioRxiv6 citations Open access
Semantic Scholar
A Statistical Analysis of Compositional Surveys
M. Nixon, J. Letourneau, L. David, Sayan Mukherjee +1 more
20225 citations
Semantic Scholar
Metformin modulates the gut microbiome in broiler breeder hens
Emily P. Van Syoc, Evelyn A. Weaver, C. Rogers, J. Silverman +2 more
2022Frontiers in Physiology4 citations Open access
Semantic Scholar
Race, employment, and the pandemic: An exploration of covariate explanations of COVID-19 case fatality rate variance
Christopher Griffin, R. Block, J. Silverman, Jason R Croad +1 more
2023PLoS ONE3 citations Open access
Semantic Scholar
Decoding the olfactory map: targeted transcriptomics link olfactory sensory neurons to glomeruli
Kevin W. Zhu, S. Burton, Maíra H. Nagai, J. Silverman +3 more
2021bioRxiv3 citations Open access
Semantic Scholar
On a comprehensive model of the novel coronavirus (COVID-19) under Mittag-Leffler derivative
N. Davies, S. Abbott, R. Barnard, C. Jarvis +14 more
20213 citations
Semantic Scholar
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 D. Washburne, J. Silverman, José Lourenço, N. Hupert
2021medRxiv3 citations Open access
Semantic Scholar
Using inﬂuenza surveillance networks to estimate state-speciﬁc case detection rates and forecast SARS-CoV-2 spread in the United States
J. Silverman, N. Hupert, Alex D. Washburne
20202 citations
Semantic Scholar
Short-chain fatty acid production by gut microbiota from children with obesity is linked to bacterial community composition and prebiotic choice
Z. Holmes, J. Silverman, H. Dressman, Zheng-Zheng Wei +5 more
2020bioRxiv2 citations Open access
Semantic Scholar
Correction to: Dynamic linear models guide design and analysis of microbiota studies within artificial human guts
J. Silverman, H. K. Durand, Rachael J. Bloom, Sayan Mukherjee +1 more
2018Microbiome2 citations Open access
Semantic Scholar
The Bayesian Sorting Hat: A Decision-Theoretic Approach to Size-Constrained Clustering
J. Silverman, R. Silverman
20172 citations
Semantic Scholar
Quantitative Geometric Modeling of Blood Cells from X-ray Histotomograms of Whole Zebrafish Larvae
Maksim A. Yakovlev, Ke Liang, Carolyn R. Zaino, D. Vanselow +8 more
2023bioRxiv1 citations Open access
Semantic Scholar
Decoding the olfactory map: targeted transcriptomics link olfactory receptors to glomeruli
Kevin W. Zhu, S. Burton, Maíra H. Nagai, J. Silverman +3 more
20211 citations Open access
Semantic Scholar
Bayesian Multivariate Count Models for the Analysis of Microbiome Studies
J. Silverman
20191 citations
Semantic Scholar
Changes in the gut mycobiome are associated with Type 2 diabetes mellitus and metformin treatment across populations
Emily P. Van Syoc, M. Nixon, J. Silverman, Yuhong Luo +6 more
20230 citations
Semantic Scholar
Microbiota responses to different prebiotics are conserved within individuals and associated with habitual fiber intake
Z. Holmes, Max M. Villa, H. K. Durand, Sharon Jiang +5 more
2022Microbiome0 citations Open access
Semantic Scholar

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Alex D. Washburne×12
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