Related references
Note: Only part of the references are listed.Cultured Asgard Archaea Shed Light on Eukaryogenesis
Purificacion Lopez-Garcia et al.
CELL (2020)
Information theoretic generalized Robinson-Foulds metrics for comparing phylogenetic trees
Martin R. Smith
BIOINFORMATICS (2020)
Whole Proteome Clustering of 2,307 Proteobacterial Genomes Reveals Conserved Proteins and Significant Annotation Issues
Svetlana Lockwood et al.
FRONTIERS IN MICROBIOLOGY (2019)
A survey and evaluations of histogram-based statistics in alignment-free sequence comparison
Brian B. Luczak et al.
BRIEFINGS IN BIOINFORMATICS (2019)
Alignment-free inference of hierarchical and reticulate phylogenomic relationships
Guillaume Bernard et al.
BRIEFINGS IN BIOINFORMATICS (2019)
Benchmarking of alignment-free sequence comparison methods
Andrzej Zielezinski et al.
GENOME BIOLOGY (2019)
Asgard archaea are the closest prokaryotic relatives of eukaryotes
Anja Spang et al.
PLOS GENETICS (2018)
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
Donovan H. Parks et al.
NATURE BIOTECHNOLOGY (2018)
High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
Chirag Jain et al.
NATURE COMMUNICATIONS (2018)
myTAI: evolutionary transcriptomics with R
Hajk-Georg Drost et al.
BIOINFORMATICS (2018)
DSP based entropy estimation for identification and classification of Homo sapiens cancer genes
Joyshri Das et al.
MICROSYSTEM TECHNOLOGIES-MICRO-AND NANOSYSTEMS-INFORMATION STORAGE AND PROCESSING SYSTEMS (2017)
Asgard archaea illuminate the origin of eukaryotic cellular complexity
Katarzyna Zaremba-Niedzwiedzka et al.
NATURE (2017)
StrainSeeker: fast identification of bacterial strains from raw sequencing reads using user-provided guide trees
Mart Roosaare et al.
PEERJ (2017)
Kullback Leibler divergence in complete bacterial and phage genomes
Sajia Akhter et al.
PEERJ (2017)
Alignment-free sequence comparison: benefits, applications, and tools
Andrzej Zielezinski et al.
GENOME BIOLOGY (2017)
KMC 3: counting and manipulating k-mer statistics
Marek Kokot et al.
BIOINFORMATICS (2017)
MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets
Yu-Wei Wu et al.
BIOINFORMATICS (2016)
Phylogenomic evidence for ancient hybridization in the genomes of living cats (Felidae)
Gang Li et al.
GENOME RESEARCH (2016)
Mammal madness: is the mammal tree of life not yet resolved?
Nicole M. Foley et al.
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2016)
MetaPalette: a k-mer Painting Approach for Metagenomic Taxonomic Profiling and Quantification of Novel Strain Variation
David Koslicki et al.
MSYSTEMS (2016)
Accurate binning of metagenomic contigs via automated clustering sequences using information of genomic signatures and marker genes
Hsin-Hung Lin et al.
SCIENTIFIC REPORTS (2016)
Mash: fast genome and metagenome distance estimation using MinHash
Brian D. Ondov et al.
GENOME BIOLOGY (2016)
KMC 2: fast and resource-frugal k-mer counting
Sebastian Deorowicz et al.
BIOINFORMATICS (2015)
dendextend: an R package for visualizing, adjusting and comparing trees of hierarchical clustering
Tal Galili
BIOINFORMATICS (2015)
An assembly and alignment-free method of phylogeny reconstruction from next-generation sequencing data
Huan Fan et al.
BMC GENOMICS (2015)
The position of tree shrews in the mammalian tree: Comparing multi-gene analyses with phylogenomic results leaves monophyly of Euarchonta doubtful
Xuming Zhou et al.
INTEGRATIVE ZOOLOGY (2015)
Lokiarchaeota: eukaryote-like missing links from microbial dark matter?
Arshan Nasir et al.
TRENDS IN MICROBIOLOGY (2015)
Correcting inconsistencies and errors in bacterial genome metadata using an automated curation tool in Excel (AutoCurE)
Sarah E. Schmedes et al.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY (2015)
Edit Distance Cannot Be Computed in Strongly Subquadratic Time (unless SETH is false)
Arturs Backurs et al.
STOC'15: PROCEEDINGS OF THE 2015 ACM SYMPOSIUM ON THEORY OF COMPUTING (2015)
Alignment-free genetic sequence comparisons: a review of recent approaches by word analysis
Oliver Bonham-Carter et al.
BRIEFINGS IN BIOINFORMATICS (2014)
Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes
Mincheol Kim et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2014)
Ward's Hierarchical Agglomerative Clustering Method: Which Algorithms Implement Ward's Criterion?
Fionn Murtagh et al.
JOURNAL OF CLASSIFICATION (2014)
Strain/species identification in metagenomes using genome-specific markers
Qichao Tu et al.
NUCLEIC ACIDS RESEARCH (2014)
Phylogenomic Analyses Elucidate the Evolutionary Relationships of Bats
Georgia Tsagkogeorga et al.
CURRENT BIOLOGY (2013)
Evolution of life history and behavior in Hominidae: Towards phylogenetic reconstruction of the chimpanzee-human last common ancestor
Pavel Duda et al.
JOURNAL OF HUMAN EVOLUTION (2013)
Resolving Prokaryotic Taxonomy without rRNA: Longer Oligonucleotide Word Lengths Improve Genome and Metagenome Taxonomic Classification
Eric B. Alsop et al.
PLOS ONE (2013)
The Placental Mammal Ancestor and the Post-K-Pg Radiation of Placentals
Maureen A. O'Leary et al.
SCIENCE (2013)
A glimpse on the pattern of rodent diversification: a phylogenetic approach
Pierre-Henri Fabre et al.
BMC EVOLUTIONARY BIOLOGY (2012)
The NCBI Taxonomy database
Scott Federhen
NUCLEIC ACIDS RESEARCH (2012)
GenBank
Dennis A. Benson et al.
NUCLEIC ACIDS RESEARCH (2012)
Acquisition of 1,000 eubacterial genes physiologically transformed a methanogen at the origin of Haloarchaea
Shijulal Nelson-Sathi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
Topological entropy of DNA sequences
David Koslicki
BIOINFORMATICS (2011)
BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments
Alexis Criscuolo et al.
BMC EVOLUTIONARY BIOLOGY (2010)
Notes on the characterization of prokaryote strains for taxonomic purposes
B. J. Tindall et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2010)
Using comparative genome analysis to identify problems in annotated microbial genomes
Maria S. Poptsova et al.
MICROBIOLOGY-SGM (2010)
Shifting the genomic gold standard for the prokaryotic species definition
Michael Richter et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Annotation Error in Public Databases: Misannotation of Molecular Function in Enzyme Superfamilies
Alexandra M. Schnoes et al.
PLOS COMPUTATIONAL BIOLOGY (2009)
The average mutual information profile as a genomic signature
Mark Bauer et al.
BMC BIOINFORMATICS (2008)
Sequence space coverage, entropy of genomes and the potential to detect non-human DNA in human samples
Zhandong Liu et al.
BMC GENOMICS (2008)
Phylogenomics Reshuffles the Eukaryotic Supergroups
Fabien Burki et al.
PLOS ONE (2007)
Deciphering ancient rapid radiations
James B. Whitfield et al.
TRENDS IN ECOLOGY & EVOLUTION (2007)
DNA-DNA hybridization values and their relationship to whole-genome sequence similarities
Johan Goris et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2007)
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation
Ivica Letunic et al.
BIOINFORMATICS (2007)
NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
Kim D. Pruitt et al.
NUCLEIC ACIDS RESEARCH (2007)
The bacterial species definition in the genomic era
Konstantinos T. Konstantinidis et al.
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2006)
A higher-level MRP supertree of placental mammals
Robin M. D. Beck et al.
BMC EVOLUTIONARY BIOLOGY (2006)
Relative-entropy algorithm for genomic fingerprinting captures host-phage similarities
H Robins et al.
JOURNAL OF BACTERIOLOGY (2005)
Highways of gene sharing in prokaryotes
RG Beiko et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)
The new higher level classification of eukaryotes with emphasis on the taxonomy of protists
SM Adl et al.
JOURNAL OF EUKARYOTIC MICROBIOLOGY (2005)
Molecular phylogeny of the Carnivora (Mammalia): Assessing the impact of increased sampling on resolving enigmatic relationships
JJ Flynn et al.
SYSTEMATIC BIOLOGY (2005)
Genomic insights that advance the species definition for prokaryotes
KT Konstantinidis et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)
Phylogeny of muroid rodents: relationships within and among major lineages as determined by IRBP gene sequences
SA Jansa et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2004)
Information theory in molecular biology
Christoph Adami
PHYSICS OF LIFE REVIEWS (2004)
APE: Analyses of Phylogenetics and Evolution in R language
E Paradis et al.
BIOINFORMATICS (2004)
Renyi continuous entropy of DNA sequences
S Vinga et al.
JOURNAL OF THEORETICAL BIOLOGY (2004)
Levy scaling: The diffusion entropy analysis applied to DNA sequences
N Scafetta et al.
PHYSICAL REVIEW E (2002)
Escherichia coli in disguise:: molecular origins of Shigella
RT Lan et al.
MICROBES AND INFECTION (2002)
KEGG: Kyoto Encyclopedia of Genes and Genomes
M Kanehisa et al.
NUCLEIC ACIDS RESEARCH (2000)
Share Paper
