ggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data

scientific article published on 18 November 2020

ggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1111/2041-210X.12628
P698PubMed publication ID33208516

P50authorEvan S SnitkinQ88232989
Hannah D SteinbergQ102151802
P2093author name stringDavid K. Smith
P2860cites workOrganised genome dynamics in the Escherichia coli species results in highly diverse adaptive pathsQ21090212
Bioconductor: open software development for computational biology and bioinformaticsQ21194861
phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census dataQ24288698
Neutrophil recruitment in Clostridium difficile toxin A enteritis in the rabbitQ24607564
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogeniesQ28658397
BEAST 2: a software platform for Bayesian evolutionary analysisQ28660145
Fast algorithms for large-scale genome alignment and comparisonQ29618357
Clostridium difficile infection: Evolution, phylogeny and molecular epidemiology.Q30239928
DNAPlotter: circular and linear interactive genome visualizationQ30850857
The role of toxin A and toxin B in Clostridium difficile infectionQ34138233
Impact of homologous and non-homologous recombination in the genomic evolution of Escherichia coliQ34308862
Burden of Clostridium difficile infection in the United StatesQ34464440
Immunogenicity and protective efficacy of recombinant Clostridium difficile flagellar protein FliCQ34512085
The role of flagella in Clostridium difficile pathogenesis: comparison between a non-epidemic and an epidemic strainQ35004696
Characterization of the SigD regulon of C. difficile and its positive control of toxin production through the regulation of tcdR.Q35073170
The flagellin FliC of Clostridium difficile is responsible for pleiotropic gene regulation during in vivo infectionQ35170972
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins.Q35441451
Bacterial flagellins: mediators of pathogenicity and host immune responses in mucosaQ35920072
Clostridium difficile ribotype 027: relationship to age, detectability of toxins A or B in stool with rapid testing, severe infection, and mortalityQ36049005
Population genomics of Chlamydia trachomatis: insights on drift, selection, recombination, and population structure.Q36387327
Clostridium difficile ribotype does not predict severe infectionQ36408941
Recombinational switching of the Clostridium difficile S-layer and a novel glycosylation gene cluster revealed by large-scale whole-genome sequencingQ36547354
Genomic insights into the fate of colistin resistance and Acinetobacter baumannii during patient treatmentQ36973626
Clostridium difficile ribotype diversity at six health care institutions in the United StatesQ37026536
Reordering contigs of draft genomes using the Mauve alignerQ37295104
Effects of control interventions on Clostridium difficile infection in England: an observational studyQ37723727
The role of flagella in Clostridium difficile pathogenicityQ38346705
Mutagenic analysis of the Clostridium difficile flagellar proteins, FliC and FliD, and their contribution to virulence in hamstersQ38629485
Comparative genome and phenotypic analysis of Clostridium difficile 027 strains provides insight into the evolution of a hypervirulent bacteriumQ39485497
The central, surface-exposed region of the flagellar hook protein FlgE of Campylobacter jejuni shows hypervariability among strainsQ39566810
Phosphoenolpyruvate:carbohydrate phosphotransferase system of bacteriaQ39830391
The Landscape of Realized Homologous Recombination in Pathogenic Bacteria.Q40931336
Emergence of Clostridium difficile infection due to a new hypervirulent strain, polymerase chain reaction ribotype 078.Q46353482
The structure of the S-layer of Clostridium difficile.Q47369077
Pathogenesis of Clostridium difficile infectionQ47963701
Type IV Pili Promote Clostridium difficile Adherence and Persistence in a Mouse Model of Infection.Q54266191
Targeting Clostridium difficile Surface Components to Develop Immunotherapeutic Strategies Against Clostridium difficile Infection.Q55194285
Why do bacteria engage in homologous recombination?Q57942124
Clostridium difficile--a spectrum of virulence and analysis of putative virulence determinants in the hamster model of antibiotic-associated colitisQ69149136
P4510describes a project that usesMUMmerQ6719063
P433issue6
P921main subjectphylogeneticsQ171184
visualizationQ451553
covariateQ5178903
P1104number of pages9
P304page(s)28-36
P577publication date2016-09-22
P1433published inmSphereQ27727104
P1476titleggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data
P478volume5

Reverse relations

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Q112338735ggtreedescribed by sourceP1343