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Author Details

Austin D Swafford
Center for Microbiome Innovation, University of California San Diego
2008
51
22
PMIDPaper TitleJournal TitlePublished Year
36812347Oral mucosal breaks trigger anti-citrullinated bacterial and human protein antibody responses in rheumatoid arthritis.Sci Transl Med2023
37853256Author Correction: Enhancing untargeted metabolomics using metadata-based source annotation.Nat Biotechnol2023
37110445Signatures of HIV and Major Depressive Disorder in the Plasma Microbiome.Microorganisms2023
34267333The microbiome and prostate cancer.Prostate Cancer Prostatic Dis2022
35652166Multiomic Analyses of Nascent Preterm Infant Microbiomes Differentiation Suggest Opportunities for Targeted Intervention.Adv Biol (Weinh)2022
35378331The Host-Microbiome Response to Hyperbaric Oxygen Therapy in Ulcerative Colitis Patients.Cell Mol Gastroenterol Hepatol2022
35798960Enhancing untargeted metabolomics using metadata-based source annotation.Nat Biotechnol2022
35369727Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy.mSystems2022
35713407A comparison of six DNA extraction protocols for 16S, ITS and shotgun metagenomic sequencing of microbial communities.Biotechniques2022
36073806Zebra: Static and Dynamic Genome Cover Thresholds with Overlapping References.mSystems2022
36179670Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions.Cell2022
33914902Utilizing stability criteria in choosing feature selection methods yields reproducible results in microbiome data.Biometrics2022
35287577Salivary bacterial signatures in depression-obesity comorbidity are associated with neurotransmitters and neuroactive dipeptides.BMC Microbiol2022
35293792Swapping Metagenomics Preprocessing Pipeline Components Offers Speed and Sensitivity Increases.mSystems2022
32868914Context-aware dimensionality reduction deconvolutes gut microbial community dynamics.Nat Biotechnol2021
35695645Potential Immune-Microbiome Interactions in Breast Cancer May Advance Treatment: What's Holding Us Back?Crit Rev Immunol2021
33512248A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities.Biotechniques2021
33482920Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment.Microbiome2021
33727399EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets.mSystems2021
34911745Class Ib MHC-Mediated Immune Interactions Play a Critical Role in Maintaining Mucosal Homeostasis in the Mammalian Large Intestine.Immunohorizons2021
34479875Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes.Genome Res2021
33026068Gastrointestinal Surgery for Inflammatory Bowel Disease Persistently Lowers Microbiome and Metabolome Diversity.Inflamm Bowel Dis2021
33098964Gut microbiome in Schizophrenia: Altered functional pathways related to immune modulation and atherosclerotic risk.Brain Behav Immun2021
32156796Metabolome-Informed Microbiome Analysis Refines Metadata Classifications and Reveals Unexpected Medication Transfer in Captive Cheetahs.mSystems2020
32061904Differing salivary microbiome diversity, community and diurnal rhythmicity in association with affective state and peripheral inflammation in adults.Brain Behav Immun2020
32047061Human Skin, Oral, and Gut Microbiomes Predict Chronological Age.mSystems2020
31894142Mass spectrometry searches using MASST.Nat Biotechnol2020
33200135A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities.bioRxiv2020
33051377Reduced Independence in Daily Living Is Associated with the Gut Microbiome in People with HIV and HCV.mSystems2020
32576651High-Resolution Longitudinal Dynamics of the Cystic Fibrosis Sputum Microbiome and Metabolome through Antibiotic Therapy.mSystems2020
32994287Depression in Individuals Coinfected with HIV and HCV Is Associated with Systematic Differences in the Gut Microbiome and Metabolome.mSystems2020
32880630Type I IFNs and CD8 T cells increase intestinal barrier permeability after chronic viral infection.J Exp Med2020
32958643CD8 T cells drive anorexia, dysbiosis, and blooms of a commensal with immunosuppressive potential after viral infection.Proc Natl Acad Sci U S A2020
32839779Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity.bioRxiv2020
32839765Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment.Res Sq2020
32214244Microbiome analyses of blood and tissues suggest cancer diagnostic approach.Nature2020
31098397Age- and Sex-Dependent Patterns of Gut Microbial Diversity in Human Adults.mSystems2019
31488215Challenges in the construction of knowledge bases for human microbiome-disease associations.Microbiome2019
31399723Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.Nat Biotechnol2019
31341288Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.Nat Biotechnol2019
28968189Impacts of the Human Gut Microbiome on Therapeutics.Annu Rev Pharmacol Toxicol2018
30322964Differential Activation of Hepatic Invariant NKT Cell Subsets Plays a Key Role in Progression of Nonalcoholic Steatohepatitis.J Immunol2018
30417111High-Throughput Miniaturized 16S rRNA Amplicon Library Preparation Reduces Costs while Preserving Microbiome Integrity.mSystems2018
30275573Qiita: rapid, web-enabled microbiome meta-analysis.Nat Methods2018
29795809American Gut: an Open Platform for Citizen Science Microbiome Research.mSystems2018
29795328Best practices for analysing microbiomes.Nat Rev Microbiol2018
25424174Detection and correction of artefacts in estimation of rare copy number variants and analysis of rare deletions in type 1 diabetes.Hum Mol Genet2015
26496802Inhibition of DYRK1A and GSK3B induces human β-cell proliferation.Nat Commun2015
21270240An allele of IKZF1 (Ikaros) conferring susceptibility to childhood acute lymphoblastic leukemia protects against type 1 diabetes.Diabetes2011
22123298Antibodies against insulin measured by electrochemiluminescence predicts insulitis severity and disease onset in non-obese diabetic mice and can distinguish human type 1 diabetes status.J Transl Med2011
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Collaborators

University of California
Co-authored papers 31
Co-authored papers 19
University of California San Diego
Co-authored papers 19
Biodesign Center for Fundamental and Applied Microbiomics, Arizona State University
Co-authored papers 15
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Co-authored papers 15
University of California San Diego
Co-authored papers 14
University of California
Co-authored papers 13
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Co-authored papers 11
University of California San Diego School of Medicine
Co-authored papers 11
University of California San Diego
Co-authored papers 10
Center for Microbiome Innovation, University of California San Diego
Co-authored papers 10
University of California San Diego
Co-authored papers 9
University of California San Diego
Co-authored papers 9
Co-authored papers 6
Cumming School of Medicine, University of Calgary
Co-authored papers 6
Co-authored papers 6
Co-authored papers 6
Northern Gulf Institute, Mississippi State University
Co-authored papers 4
Feinberg School of Medicine Northwestern University
Co-authored papers 4
Co-authored papers 3
University of California San Diego
Co-authored papers 3
Co-authored papers 3
University of California San Diego
Co-authored papers 3
Broad Institute of MIT and Harvard
Co-authored papers 3
University of California
Co-authored papers 3
Karolinska Institutet
Co-authored papers 3
University of Minnesota
Co-authored papers 3
University of California, university of california san diego
Co-authored papers 3
Co-authored papers 3
Co-authored papers 3