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Author Details

Cameron Martino
Center for Microbiome Innovation, University of California San Diego
2018
45
22
Prashant Mali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36805022Microbiome response in an urban river system is dominated by seasonality over wastewater treatment upgrades.Environ Microbiome2023
37720019Whole-body modelling reveals microbiome and genomic interactions on reduced urine formate levels in Alzheimer's disease.Res Sq2023
37853256Author Correction: Enhancing untargeted metabolomics using metadata-based source annotation.Nat Biotechnol2023
37611587Paired microbiome and metabolome analyses associate bile acid changes with colorectal cancer progression.Cell Rep2023
36697822Insulin-regulated serine and lipid metabolism drive peripheral neuropathy.Nature2023
36812347Oral mucosal breaks trigger anti-citrullinated bacterial and human protein antibody responses in rheumatoid arthritis.Sci Transl Med2023
36778470BIRDMAn: A Bayesian differential abundance framework that enables robust inference of host-microbe associations.bioRxiv2023
35293792Swapping Metagenomics Preprocessing Pipeline Components Offers Speed and Sensitivity Increases.mSystems2022
35444197Early microbial markers of periodontal and cardiometabolic diseases in ORIGINS.NPJ Biofilms Microbiomes2022
35477286Compositionally Aware Phylogenetic Beta-Diversity Measures Better Resolve Microbiomes Associated with Phenotype.mSystems2022
35802808Baseline microbiome and metabolome are associated with response to ITIS diet in an exploratory trial in patients with rheumatoid arthritis.Clin Transl Med2022
35798960Enhancing untargeted metabolomics using metadata-based source annotation.Nat Biotechnol2022
35793637Diet and feeding pattern modulate diurnal dynamics of the ileal microbiome and transcriptome.Cell Rep2022
35760817Context-aware deconvolution of cell-cell communication with Tensor-cell2cell.Nat Commun2022
35713407A comparison of six DNA extraction protocols for 16S, ITS and shotgun metagenomic sequencing of microbial communities.Biotechniques2022
35941112Acetate reprograms gut microbiota during alcohol consumption.Nat Commun2022
36179670Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions.Cell2022
35906422Microbiota succession throughout life from the cradle to the grave.Nat Rev Microbiol2022
36304280Applications and Comparison of Dimensionality Reduction Methods for Microbiome Data.Front Bioinform2022
32868914Context-aware dimensionality reduction deconvolutes gut microbial community dynamics.Nat Biotechnol2021
35590169Naturalization of the microbiota developmental trajectory of Cesarean-born neonates after vaginal seeding.Med2021
36339501Effects of dietary microbial feed supplement on production efficacy in lactating dairy cows.JDS Commun2021
33853672Assessment of the microbiome during bacteriophage therapy in combination with systemic antibiotics to treat a case of staphylococcal device infection.Microbiome2021
33512248A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities.Biotechniques2021
33897472Influence of Intermittent Hypoxia/Hypercapnia on Atherosclerosis, Gut Microbiome, and Metabolome.Front Physiol2021
33727399EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets.mSystems2021
34861887Clean room microbiome complexity impacts planetary protection bioburden.Microbiome2021
34609167Uniform Manifold Approximation and Projection (UMAP) Reveals Composite Patterns and Resolves Visualization Artifacts in Microbiome Data.mSystems2021
34184915Intermittent Hypoxia and Hypercapnia Alter Diurnal Rhythms of Luminal Gut Microbiome and Metabolome.mSystems2021
34103074SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment.Microbiome2021
32343490QIIME 2 Enables Comprehensive End-to-End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data.Curr Protoc Bioinformatics2020
33200135A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities.bioRxiv2020
33236030Microbial context predicts SARS-CoV-2 prevalence in patients and the hospital built environment.medRxiv2020
32699853SARS-CoV-2 Infection Depends on Cellular Heparan Sulfate and ACE2.bioRxiv2020
32839779Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity.bioRxiv2020
32391521Visualizing 'omic feature rankings and log-ratios using Qurro.NAR Genom Bioinform2020
32184365Consumption of Fermented Foods Is Associated with Systematic Differences in the Gut Microbiome and Metabolome.mSystems2020
32135388Air pollution exposure is associated with the gut microbiome as revealed by shotgun metagenomic sequencing.Environ Int2020
30801021A Novel Sparse Compositional Technique Reveals Microbial Perturbations.mSystems2019
31672156Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads.Genome Biol2019
31848455Rumen Bacteria and Serum Metabolites Predictive of Feed Efficiency Phenotypes in Beef Cattle.Sci Rep2019
31266992Temporal Stability of the Ruminal Bacterial Communities in Beef Steers.Sci Rep2019
31548686Gut bacteria responding to dietary change encode sialidases that exhibit preference for red meat-associated carbohydrates.Nat Microbiol2019
30776908Engineering the microbiome for animal health and conservation.Exp Biol Med (Maywood)2019
29619418The Role of Intestinal C-type Regenerating Islet Derived-3 Lectins for Nonalcoholic Steatohepatitis.Hepatol Commun2018
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Collaborators

Rob Knight
University of California
Co-authored papers 27
Daniel McDonald
University of California San Diego
Co-authored papers 14
Clarisse Marotz
University of California San Diego
Co-authored papers 13
Austin D Swafford
Center for Microbiome Innovation, University of California San Diego
Co-authored papers 11
Justin P Shaffer
University of California San Diego
Co-authored papers 11
Pieter C Dorrestein
Co-authored papers 10
Qiyun Zhu
Biodesign Center for Fundamental and Applied Microbiomics, Arizona State University
Co-authored papers 9
Gregory Humphrey
University of California
Co-authored papers 9
Yoshiki V??zquez-Baeza
Center for Microbiome Innovation, University of California San Diego
Co-authored papers 8
Gail Ackermann
University of California San Diego
Co-authored papers 7
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Cumming School of Medicine, University of Calgary
Co-authored papers 7
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University of California San Diego
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Antonio Gonzalez
University of California San Diego School of Medicine
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Stephen Wandro
Center for Microbiome Innovation, University of California San Diego
Co-authored papers 5
Alan K Jarmusch
Co-authored papers 4
Brigid S Boland
University of California
Co-authored papers 3
Amir Zarrinpar
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Benjamin P Kellman
Co-authored papers 2
Amandine Chaix
University of Utah
Co-authored papers 2
Douglas Galasko
Co-authored papers 2
Mingxun Wang
Co-authored papers 2
Dan Zhou
Co-authored papers 2
Jivani M Gengatharan
The Salk Institute for Biological Studies
Co-authored papers 2
Nathan E Lewis
University of California San Diego
Co-authored papers 2
Parambir S Dulai
Feinberg School of Medicine Northwestern University
Co-authored papers 2
Bernd Schnabl
University of California San Diego
Co-authored papers 2
Jin Xue
Co-authored papers 2
Tatyana I Kalashnikova
The Scripps Research Institute
Co-authored papers 2
Gabriel G Haddad
university of california san diego
Co-authored papers 2
Orit Poulsen
Co-authored papers 2
Release 1.2