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Author Details

Keith A Crandall
US National Museum of Natural History, Smithsonian Institution
1992
225
55
Nathan Sheffield (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36698799Using metabolic potential within the airway microbiome as predictors of clinical state in persons with cystic fibrosis.Front Med (Lausanne)2023
37633998Metagenomic profiling pipelines improve taxonomic classification for 16S amplicon sequencing data.Sci Rep2023
37552897Major Revisions in Pancrustacean Phylogeny and Evidence of Sensitivity to Taxon Sampling.Mol Biol Evol2023
37795302Spatial diversity of the skin bacteriome.Front Microbiol2023
37941464Convergent adaptation of true crabs (Decapoda: Brachyura) to a gradient of terrestrial environments.Syst Biol2023
36681756Therapeutic beta-lactam dosages and broad-spectrum antibiotics are associated with reductions in microbial richness and diversity in persons with cystic fibrosis.Sci Rep2023
35323950Association of Early Aspirin Use With In-Hospital Mortality in Patients With Moderate COVID-19.JAMA Netw Open2022
35842456Metabolite, protein, and tissue dysfunction associated with COVID-19 disease severity.Sci Rep2022
35794639Induction of mastitis by cow-to-mouse fecal and milk microbiota transplantation causes microbiome dysbiosis and genomic functional perturbation in mice.Anim Microbiome2022
35396471Unlocking capacities of genomics for the COVID-19 response and future pandemics.Nat Methods2022
35630467Composition, Structure and Diversity of Soil Bacterial Communities before, during and after Transit through the Gut of the Earthworm <i>Aporrectodea caliginosa</i>.Microorganisms2022
35620097Comparative Analysis of Metagenomics and Metataxonomics for the Characterization of Vermicompost Microbiomes.Front Microbiol2022
36680108Insights into HIV-1 Transmission Dynamics Using Routinely Collected Data in the Mid-Atlantic United States.Viruses2022
36558359Impact of Fecal Microbiota Transplantation on Gut Bacterial Bile Acid Metabolism in Humans.Nutrients2022
35867565The HIV Latency Reversal Agent HODHBt Enhances NK Cell Effector and Memory-Like Functions by Increasing Interleukin-15-Mediated STAT Activation.J Virol2022
35927583Host taxonomy determines the composition, structure, and diversity of the earthworm cast microbiome under homogenous feeding conditions.FEMS Microbiol Ecol2022
36168550Impact of Antibiotics on the Lung Microbiome and Lung Function in Children With Cystic Fibrosis 1 Year After Hospitalization for an Initial Pulmonary Exacerbation.Open Forum Infect Dis2022
36160194Source and acquisition of rhizosphere microbes in Antarctic vascular plants.Front Microbiol2022
35042802Standards recommendations for the Earth BioGenome Project.Proc Natl Acad Sci U S A2022
35042801Why sequence all eukaryotes?Proc Natl Acad Sci U S A2022
35042800The Earth BioGenome Project 2020: Starting the clock.Proc Natl Acad Sci U S A2022
35277961Chromosome-level genome assembly, annotation, and phylogenomics of the gooseneck barnacle Pollicipes pollicipes.Gigascience2022
33438113Felsenstein Phylogenetic Likelihood.J Mol Evol2021
33654282Inflammation in children with cystic fibrosis: contribution of bacterial production of long-chain fatty acids.Pediatr Res2021
34642347Author Correction: Genome-wide analysis of SARS-CoV-2 virus strains circulating worldwide implicates heterogeneity.Sci Rep2021
34466296A synthesis tree of the Copepoda: integrating phylogenetic and taxonomic data reveals multiple origins of parasitism.PeerJ2021
34810425The genus Creaserinus Hobbs, 1973 (Decapoda: Cambaridae) in Texas.Zootaxa2021
34837008Epidemiological associations with genomic variation in SARS-CoV-2.Sci Rep2021
34021052Importance of beta-lactam pharmacokinetics and pharmacodynamics on the recovery of microbial diversity in the airway of persons with cystic fibrosis.J Investig Med2021
33941616Locus-Specific Characterization of Human Endogenous Retrovirus Expression in Prostate, Breast, and Colon Cancers.Cancer Res2021
34015823COVID-19 biomarkers and their overlap with comorbidities in a disease biomarker data model.Brief Bioinform2021
34269323Impact of Anaerobic Antibacterial Spectrum on Cystic Fibrosis Airway Microbiome Diversity and Pulmonary Function.Pediatr Infect Dis J2021
33986751Expression of Human Endogenous Retroviruses in Systemic Lupus Erythematosus: Multiomic Integration With Gene Expression.Front Immunol2021
33974004Omics community detection using multi-resolution clustering.Bioinformatics2021
33948451Unlocking capacities of viral genomics for the COVID-19 pandemic response.ArXiv2021
34330993Earthworms drastically change fungal and bacterial communities during vermicomposting of sewage sludge.Sci Rep2021
33084200Exon probe sets and bioinformatics pipelines for all levels of fish phylogenomics.Mol Ecol Resour2021
33166379Each patient is a research biorepository: informatics-enabled research on surplus clinical specimens via the living BioBank.J Am Med Inform Assoc2021
33367849HAPHPIPE: Haplotype Reconstruction and Phylodynamics for Deep Sequencing of Intrahost Viral Populations.Mol Biol Evol2021
31585122Mutated CEACAMs Disrupt Transforming Growth Factor Beta Signaling and Alter the Intestinal Microbiome to Promote Colorectal Carcinogenesis.Gastroenterology2020
32674515Validation of Variant Assembly Using HAPHPIPE with Next-Generation Sequence Data from Viruses.Viruses2020
32872377Human Endogenous Retrovirus Expression Is Associated with Head and Neck Cancer and Differential Survival.Viruses2020
32582039Insights Into the Resistome of Bovine Clinical Mastitis Microbiome, a Key Factor in Disease Complication.Front Microbiol2020
32281732Consumption of Diet Soda Sweetened with Sucralose and Acesulfame-Potassium Alters Inflammatory Transcriptome Pathways in Females with Overweight and Obesity.Mol Nutr Food Res2020
32151775Evaluation of haplotype callers for next-generation sequencing of viruses.Infect Genet Evol2020
32358926Hemiptera phylogenomic resources: Tree-based orthology prediction and conserved exon identification.Mol Ecol Resour2020
32148604Testing the "Grandma Hypothesis": Characterizing Skin Microbiome Diversity as a Project-Based Learning Approach to Genomics.J Microbiol Biol Educ2020
32438586Drug Resistance Prediction Using Deep Learning Techniques on HIV-1 Sequence Data.Viruses2020
32411616Longitudinal Associations of the Cystic Fibrosis Airway Microbiome and Volatile Metabolites: A Case Study.Front Cell Infect Microbiol2020
32381734Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable.Proc Natl Acad Sci U S A2020
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Collaborators

Center for Genetic Medicine Research, Children's National Research Institute
Co-authored papers 17
University of Cambridge
Co-authored papers 4
University of California Davis
Co-authored papers 4
University of Copenhagen, Universitetsparken 15
Co-authored papers 4
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Co-authored papers 3
Uppsala University
Co-authored papers 3
University of Illinois at Urbana-Champaign
Co-authored papers 3
Division of Clinical Research, National Institutes of Allergy and Infectious Diseases
Co-authored papers 3
USDA, Beltsville Agricultural Research Center
Co-authored papers 3
National Museum of Natural History, Smithsonian Institution
Co-authored papers 3
California Institute of Technology
Co-authored papers 2
Max Planck Institute of Molecular Cell Biology and Genetics
Co-authored papers 2
Institute of Ecology and Evolution, University of Edinburgh
Co-authored papers 2
David Geffen School of Medicine, University of California los angeles
Co-authored papers 2
Co-authored papers 2
Co-authored papers 2
Emory School of Medicine
Co-authored papers 2
University of Melbourne
Co-authored papers 2
Co-authored papers 2
Experimental Research Center, China Academy of Chinese Medical Sciences
Co-authored papers 2
Genomics Institute, University of California Santa Cruz
Co-authored papers 2
Computational Biology Institute, The George Washington University
Co-authored papers 2
Brigham Young University
Co-authored papers 2
Rega Institute, Laboratory of Clinical and Evolutionary Virology
Co-authored papers 2
Genentech Inc.
Co-authored papers 2
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Milken Institute School of Public Health, The George Washington University
Co-authored papers 2
Sydney Institute for Infectious Diseases, The University of Sydney
Co-authored papers 2