Daniel N Frank

Summary

Affiliation: University of Colorado
Country: USA

Publications

  1. pmc Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases
    Daniel N Frank
    Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80045, USA
    Inflamm Bowel Dis 17:179-84. 2011
  2. pmc XplorSeq: a software environment for integrated management and phylogenetic analysis of metagenomic sequence data
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, Mucosal and Vaccine Research Program Colorado, University of Colorado, Boulder, CO, USA 80309, USA
    BMC Bioinformatics 9:420. 2008
  3. pmc BARCRAWL and BARTAB: software tools for the design and implementation of barcoded primers for highly multiplexed DNA sequencing
    Daniel N Frank
    Department of Molecular, University of Colorado, Boulder, CO 80309, USA
    BMC Bioinformatics 10:362. 2009
  4. pmc Explicet: graphical user interface software for metadata-driven management, analysis and visualization of microbiome data
    Charles E Robertson
    Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, CO 80309, USA, University of Colorado Microbiome Research Consortium, Department of Pediatrics, University of Colorado Anschutz Medical Campus, Department of Biostatistics and Informatics, Colorado School of Public Health, Aurora, CO 80045, USA, Incubix Incorporated, Boulder, CO 80301, USA and Department of Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA
    Bioinformatics 29:3100-1. 2013
  5. pmc Culture-independent analysis of aerosol microbiology in a metropolitan subway system
    Charles E Robertson
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO, USA
    Appl Environ Microbiol 79:3485-93. 2013
  6. pmc The human nasal microbiota and Staphylococcus aureus carriage
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado at Boulder, Boulder, Colorado, United States of America
    PLoS ONE 5:e10598. 2010
  7. pmc Culture-independent microbiological analysis of foley urinary catheter biofilms
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO, USA
    PLoS ONE 4:e7811. 2009
  8. pmc Opportunistic pathogens enriched in showerhead biofilms
    Leah M Feazel
    Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, CO 80309 0347, USA
    Proc Natl Acad Sci U S A 106:16393-9. 2009
  9. doi request reprint Prevalence and abundance of Staphylococcus aureus in the middle meatus of patients with chronic rhinosinusitis, nasal polyps, and asthma
    Vijay R Ramakrishnan
    Department of Otolaryngology Head and Neck Surgery, University of Colorado, Aurora, CO 88045, USA
    Int Forum Allergy Rhinol 3:267-71. 2013
  10. doi request reprint Microbial diversity in chronic open wounds
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, USA
    Wound Repair Regen 17:163-72. 2009

Collaborators

Detail Information

Publications19

  1. pmc Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases
    Daniel N Frank
    Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80045, USA
    Inflamm Bowel Dis 17:179-84. 2011
    ..We hypothesize that NOD2 and ATG16L1 risk alleles may be associated with these alterations...
  2. pmc XplorSeq: a software environment for integrated management and phylogenetic analysis of metagenomic sequence data
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, Mucosal and Vaccine Research Program Colorado, University of Colorado, Boulder, CO, USA 80309, USA
    BMC Bioinformatics 9:420. 2008
    ..As the scale of rDNA-based studies of microbial ecology has expanded, need has arisen for software that is capable of managing, annotating, and analyzing the plethora of diverse data accumulated in these projects...
  3. pmc BARCRAWL and BARTAB: software tools for the design and implementation of barcoded primers for highly multiplexed DNA sequencing
    Daniel N Frank
    Department of Molecular, University of Colorado, Boulder, CO 80309, USA
    BMC Bioinformatics 10:362. 2009
    ....
  4. pmc Explicet: graphical user interface software for metadata-driven management, analysis and visualization of microbiome data
    Charles E Robertson
    Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, CO 80309, USA, University of Colorado Microbiome Research Consortium, Department of Pediatrics, University of Colorado Anschutz Medical Campus, Department of Biostatistics and Informatics, Colorado School of Public Health, Aurora, CO 80045, USA, Incubix Incorporated, Boulder, CO 80301, USA and Department of Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA
    Bioinformatics 29:3100-1. 2013
    ....
  5. pmc Culture-independent analysis of aerosol microbiology in a metropolitan subway system
    Charles E Robertson
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO, USA
    Appl Environ Microbiol 79:3485-93. 2013
    ....
  6. pmc The human nasal microbiota and Staphylococcus aureus carriage
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado at Boulder, Boulder, Colorado, United States of America
    PLoS ONE 5:e10598. 2010
    ..aureus colonization we determined the composition and dynamics of the nasal microbiota and correlated specific microorganisms with S. aureus colonization...
  7. pmc Culture-independent microbiological analysis of foley urinary catheter biofilms
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO, USA
    PLoS ONE 4:e7811. 2009
    ..Prevention of catheter-associated urinary tract infection (CAUTI), a leading cause of nosocomial disease, is complicated by the propensity of bacteria to form biofilms on indwelling medical devices [1,2,3,4,5]...
  8. pmc Opportunistic pathogens enriched in showerhead biofilms
    Leah M Feazel
    Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, CO 80309 0347, USA
    Proc Natl Acad Sci U S A 106:16393-9. 2009
    ..The health risk associated with showerhead microbiota needs investigation in persons with compromised immune or pulmonary systems...
  9. doi request reprint Prevalence and abundance of Staphylococcus aureus in the middle meatus of patients with chronic rhinosinusitis, nasal polyps, and asthma
    Vijay R Ramakrishnan
    Department of Otolaryngology Head and Neck Surgery, University of Colorado, Aurora, CO 88045, USA
    Int Forum Allergy Rhinol 3:267-71. 2013
    ..Staphylococcus aureus (SA) appears to be implicated in a number of infectious and inflammatory mechanisms, and may be particularly relevant in CRS patients with nasal polyps and asthma...
  10. doi request reprint Microbial diversity in chronic open wounds
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, USA
    Wound Repair Regen 17:163-72. 2009
    ....
  11. ncbi request reprint Gastrointestinal microbiology enters the metagenomics era
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, Colorado 80309 0347, USA
    Curr Opin Gastroenterol 24:4-10. 2008
    ..This review summarizes the molecular methods of culture-independent microbiology ('metagenomics') and their recent application to studies of the human gastrointestinal tract in both health and disease...
  12. pmc Effects of different complementary feeding regimens on iron status and enteric microbiota in breastfed infants
    Nancy F Krebs
    Section of Nutrition, Department of Pediatrics, University of Colorado School of Medicine, Aurora, CO, USA
    J Pediatr 163:416-23. 2013
    ..To compare iron status in breastfed infants randomized to groups receiving complementary feeding regimens that provided iron from fortified infant cereals or meats, and to examine the development of the enteric microbiota in these groups...
  13. pmc Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts
    Catherine Lozupone
    Department of Chemistry and Biochemistry and Biofrontiers Institute, University of Colorado, Boulder, Colorado 80309, USA
    Genome Res 22:1974-84. 2012
    ....
  14. doi request reprint Altered vaginal microbiota are associated with perinatal mother-to-child transmission of HIV in African women from Burkina Faso
    Daniel N Frank
    Department of Medicine, Division of Infectious Diseases, University of Colorado School of Medicine, Denver, CO, USA
    J Acquir Immune Defic Syndr 60:299-306. 2012
    ..Because perturbations in vaginal microbial communities are associated with sexual transmission of HIV, we determined whether perinatal MTCT is associated with the vaginal microbiotas of HIV-infected mothers...
  15. pmc Investigating the biological and clinical significance of human dysbioses
    Daniel N Frank
    Division of Infectious Diseases, School of Medicine, University of Colorado, School of Medicine, Aurora, CO 80045, USA
    Trends Microbiol 19:427-34. 2011
    ..g. host single nucleotide polymorphisms and host gene expression) and for integrating patient-based data with results from experimental animal models to gain deeper understanding of how host-microbe interactions impact disease...
  16. pmc Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases
    Daniel N Frank
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO 80309 0347, USA
    Proc Natl Acad Sci U S A 104:13780-5. 2007
    ..Patient stratification by GI microbiota provides further evidence that CD represents a spectrum of disease states and suggests that treatment of some forms of IBD may be facilitated by redress of the detected microbiological imbalances...
  17. pmc Eucaryotic diversity in a hypersaline microbial mat
    Leah M Feazel
    Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, CO 90309 0347, USA
    Appl Environ Microbiol 74:329-32. 2008
    ..Six eucaryotic kingdoms were represented, as well as a novel cluster of sequences. Nematode sequences dominated the clone libraries...
  18. pmc Preconception maternal nutrition: a multi-site randomized controlled trial
    K Michael Hambidge
    University of Colorado Denver, Aurora, CO, USA
    BMC Pregnancy Childbirth 14:111. 2014
    ....
  19. pmc Pathogen-specific antibodies: codependent no longer
    Edward N Janoff
    Mucosal and Vaccine Research Program Colorado, University of Colorado Denver, RC 2, Box B 168, 12700 E 19th Ave, Aurora, CO 80045, USA
    J Clin Invest 120:1039-42. 2010
    ..These data suggest that pathogens have the capacity to generate broad metabolic responses as a result of surface binding by pathogen-specific antibodies, effects that may hold therapeutic promise...