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Author Details

Patrick S G Chain
Los Alamos National Laboratory
2000
292
58
PMIDPaper TitleJournal TitlePublished Year
37295515Diversity of fungal microbiome obtained from plant rhizoplanes.Sci Total Environ2023
37965130Fungal drops: a novel approach for macro- and microscopic analyses of fungal mycelial growth.Microlife2023
38079228Bridging Place-Based Astrobiology Education with Genomics, Including Descriptions of Three Novel Bacterial Species Isolated from Mars Analog Sites of Cultural Relevance.Astrobiology2023
37626434The endohyphal microbiome: current progress and challenges for scaling down integrative multi-omic microbiome research.Microbiome2023
37799600Metabolic versatility of <i>Caldarchaeales</i> from geothermal features of Hawai'i and Chile as revealed by five metagenome-assembled genomes.Front Microbiol2023
38004814Genomic and Phenotypic Characterization of Shiga Toxin-Producing <i>Escherichia albertii</i> Strains Isolated from Wild Birds in a Major Agricultural Region in California.Microorganisms2023
37735266Identification of mobile genetic elements with geNomad.Nat Biotechnol2023
37723238Comparative genomics of Mollicutes-related endobacteria supports a late invasion into Mucoromycota fungi.Commun Biol2023
37142360A centralized resource for bacterial-fungal interactions research.Fungal Biol2023
35325127Improved methods to assess the effect of bacteria on germination of fungal spores.FEMS Microbiol Lett2022
35722318Advances and Challenges in Fluorescence <i>in situ</i> Hybridization for Visualizing Fungal Endobacteria.Front Microbiol2022
35630311Comparative Genomics Applied to Systematically Assess Pathogenicity Potential in Shiga Toxin-Producing <i>Escherichia coli</i> O145:H28.Microorganisms2022
35561186EDGE COVID-19: a web platform to generate submission-ready genomes from SARS-CoV-2 sequencing efforts.Bioinformatics2022
36962439Comparing variability in diagnosis of upper respiratory tract infections in patients using syndromic, next generation sequencing, and PCR-based methods.PLOS Glob Public Health2022
36104696Design and construction of 3D printed devices to investigate active and passive bacterial dispersal on hydrated surfaces.BMC Biol2022
35935195Islands Within Islands: Bacterial Phylogenetic Structure and Consortia in Hawaiian Lava Caves and Fumaroles.Front Microbiol2022
35996182Importance of appropriate genome information for the design of mating type primers in black and yellow morel populations.IMA Fungus2022
36303775Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale.Front Bioinform2022
36032969Intrahost SARS-CoV-2 k-mer identification method (iSKIM) for rapid detection of mutations of concern reveals emergence of global mutation patterns.bioRxiv2022
36298683Intrahost SARS-CoV-2 k-mer Identification Method (iSKIM) for Rapid Detection of Mutations of Concern Reveals Emergence of Global Mutation Patterns.Viruses2022
35924938Complete Genome Sequences of the Soil Oxalotrophic Bacterium Cupriavidus oxalaticus Strain Ox1 and Its Derived mCherry-Tagged Strain.Microbiol Resour Announc2022
36380755Towards increased accuracy and reproducibility in SARS-CoV-2 next generation sequence analysis for public health surveillance.bioRxiv2022
36093336Benchmark datasets for SARS-CoV-2 surveillance bioinformatics.PeerJ2022
36323792The Coronavirus Standards Working Group's roadmap for improved population testing.Nat Biotechnol2022
35096026Multiple Cases of Bacterial Sequence Erroneously Incorporated Into Publicly Available Chloroplast Genomes.Front Genet2022
32777813A public website for the automated assessment and validation of SARS-CoV-2 diagnostic PCR assays.Bioinformatics2021
33494894DNA adenine methylase, not the PstI restriction-modification system, regulates virulence gene expression in Shiga toxin-producing Escherichia coli.Food Microbiol2021
33622857Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities.mSystems2021
33524010Comparative genomic and phenotypic characterization of invasive non-typhoidal Salmonella isolates from Siaya, Kenya.PLoS Negl Trop Dis2021
34851164Discovery of an Antarctic Ascidian-Associated Uncultivated <i>Verrucomicrobia</i> with Antimelanoma Palmerolide Biosynthetic Potential.mSphere2021
35004620Bioinformatic and Mechanistic Analysis of the Palmerolide PKS-NRPS Biosynthetic Pathway From the Microbiome of an Antarctic Ascidian.Front Chem2021
34621007Widespread bacterial diversity within the bacteriome of fungi.Commun Biol2021
34307800Epigenetic regulation of gene expression in Shiga toxin-producing <i>Escherichia coli</i>: Transcriptomic data.Data Brief2021
33947809Correction for Vangay et al., "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities".mSystems2021
33184503Author Correction: Roadmap for naming uncultivated Archaea and Bacteria.Nat Microbiol2021
33440006Democratization of fungal highway columns as a tool to investigate bacteria associated with soil fungi.FEMS Microbiol Ecol2021
30891596Active Targeted Surveillance to Identify Sites of Emergence of Hantavirus.Clin Infect Dis2020
31751454Precision Medicine and Precision Public Health in the Era of Pathogen Next-Generation Sequencing.J Infect Dis2020
32047060A Gene Cluster That Encodes Histone Deacetylase Inhibitors Contributes to Bacterial Persistence and Antibiotic Tolerance in Burkholderia thailandensis.mSystems2020
32015354Standardized phylogenetic and molecular evolutionary analysis applied to species across the microbial tree of life.Sci Rep2020
33374112The Gut Microbiome and Alcoholic Liver Disease: Ethanol Consumption Drives Consistent and Reproducible Alteration in Gut Microbiota in Mice.Life (Basel)2020
32580939Genomic Analysis of Diverse Members of the Fungal Genus <i>Monosporascus</i> Reveals Novel Lineages, Unique Genome Content and a Potential Bacterial Associate.G3 (Bethesda)2020
32498449Uncovering the Core Microbiome and Distribution of Palmerolide in <i>Synoicum adareanum</i> Across the Anvers Island Archipelago<i>,</i> Antarctica.Mar Drugs2020
32350400The National Microbiome Data Collaborative: enabling microbiome science.Nat Rev Microbiol2020
31538189Novel Insights Into the Spread of Enteric Pathogens Using Genomics.J Infect Dis2020
30478230Remedial Treatment of Corroded Iron Objects by Environmental <i>Aeromonas</i> Isolates.Appl Environ Microbiol2019
35506046Investigating intestinal permeability and gut microbiota roles in acute coronary syndrome patients.Hum Microb J2019
31557962MicroRNA in Pancreatic Cancer: From Biology to Therapeutic Potential.Genes (Basel)2019
31608125Advances and Challenges in Metatranscriptomic Analysis.Front Genet2019
30804904Adaptive Strategies in a Poly-Extreme Environment: Differentiation of Vegetative Cells in <i>Serratia ureilytica</i> and Resistance to Extreme Conditions.Front Microbiol2019
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Collaborators

Karen W Davenport
Los Alamos National Laboratory
Co-authored papers 93
Nikos C Kyrpides
Co-authored papers 82
Amrita Pati
Department of Energy (DOE) Joint Genome Institute
Co-authored papers 62
Hans-Peter Klenk
Co-authored papers 62
Konstantinos Mavromatis
Celgene Corporation
Co-authored papers 61
Chien-Chi Lo
Los Alamos National Laboratory
Co-authored papers 60
Alla Lapidus
Center for Algorithmic Biotechnology, Saint Petersburg State University
Co-authored papers 59
Miriam Land
Oak Ridge National Laboratory
Co-authored papers 58
Cliff Han
Los Alamos National Laboratory
Co-authored papers 54
Markus Göker
Co-authored papers 52
Jonathan A Eisen
McLean Hospital
Co-authored papers 47
Thomas Brettin
University of Chicago
Co-authored papers 42
Tanja Woyke
Co-authored papers 32
Yan Xu
Los Alamos National Laboratory
Co-authored papers 30
Po-E Li
Los Alamos National Laboratory
Co-authored papers 22
Migun Shakya
Los Alamos National Laboratory
Co-authored papers 14
Bin Hu
Los Alamos National Laboratory
Co-authored papers 13
Marcel Huntemann
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 12
Thomas Junier
Institute of Biology, University of Neuchatel
Co-authored papers 11
Patrik D'haeseleer
Lawrence Livermore National Laboratory
Co-authored papers 10
Shweta Deshpande
Cleveland Clinic Akron General Medical Center
Co-authored papers 8
Folker Meyer
Institute for Artificial Intelligence, University of Duisburg-Essen
Co-authored papers 6
Lynn M Schriml
University of Maryland School of Medicine, Institute for Genome Sciences
Co-authored papers 4
William D Duncan
University of Florida
Co-authored papers 4
Edward M Rubin
Co-authored papers 4
Christopher J Mungall
International Society for Biocuration, Lawrence Berkeley National Laboratory, University of Edinburgh, University of Edinburgh School of Biological Sciences
Co-authored papers 4
George M Weinstock
The Genome Center at Washington University, Washington University School of Medicine
Co-authored papers 4
Dawn Field
Biodiversity Institute, University of Oxford
Co-authored papers 4
Lee Ann McCue
Pacific Northwest National Laboratory
Co-authored papers 4
Emiley A Eloe-Fadrosh
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 4
Release 1.2