Lista de obras - Thomas G Doak - Dominio Público Uruguay

A functional role for transposases in a large eukaryotic genome

artículo científico publicado en 2009

A genomic survey of Reb homologs suggests widespread occurrence of R-bodies in proteobacteria.

artículo científico publicado en 2013

A parsimony approach to biological pathway reconstruction/inference for genomes and metagenomes

artículo científico publicado en 2009

ADFinder: accurate detection of programmed DNA elimination using NGS high-throughput sequencing data

scientific article published on 04 April 2020

Artificial functional difference between microbial communities caused by length difference of sequencing reads

artículo científico publicado en 2012

Background Mutational Features of the Radiation-Resistant Bacterium Deinococcus radiodurans

artículo científico publicado en 2015

Bats use magnetite to detect the earth's magnetic field

artículo científico publicado en 2008

CRISPR-Cas systems target a diverse collection of invasive mobile genetic elements in human microbiomes

artículo científico publicado en 2013

Characterization and taxonomic validity of the ciliate Oxytricha trifallax (Class Spirotrichea) based on multiple gene sequences: limitations in identifying genera solely by morphology

artículo científico publicado en 2012

Coding properties of Oxytricha trifallax (Sterkiella histriomuscorum) macronuclear chromosomes: analysis of a pilot genome project

scientific article published on 16 July 2004

Comparing bacterial communities inferred from 16S rRNA gene sequencing and shotgun metagenomics

artículo científico publicado en 2011

Conserved features of TBE1 transposons in ciliated protozoa

artículo científico publicado el 1 de enero de 1997

Copy number variations of 11 macronuclear chromosomes and their gene expression in Oxytricha trifallax

artículo científico publicado en 2012

Differential retention and divergent resolution of duplicate genes following whole-genome duplication

artículo científico publicado en 2014

Disentangling the Taxonomy of Rickettsiales and Description of Two Novel Symbionts ("Candidatus Bealeia paramacronuclearis" and "Candidatus Fokinia cryptica") Sharing the Cytoplasm of the Ciliate Protist Paramecium biaurelia

artículo científico publicado en 2016

Diverse CRISPRs evolving in human microbiomes.

artículo científico publicado en 2012

Diversity and Universality of Endosymbiotic Rickettsia in the Fish Parasite Ichthyophthirius multifiliis

artículo científico publicado en 2017

Draft Genome Sequence of Caedibacter varicaedens, a Kappa Killer Endosymbiont Bacterium of the Ciliate Paramecium biaurelia

artículo científico publicado en 2015

Drift-barrier hypothesis and mutation-rate evolution.

artículo científico publicado en 2012

Escherichia coli cultures maintain stable subpopulation structure during long-term evolution.

artículo científico publicado en 2018

Estimating Seven Coefficients of Pairwise Relatedness Using Population-Genomic Data.

artículo científico publicado en 2017

Estimating seven coefficients of pairwise relatedness using population genomic data

article

Estimation of the Genome-Wide Mutation Rate and Spectrum in the Archaeal Species Haloferax volcanii

artículo científico publicado en 2020

Expanding the catalog of cas genes with metagenomes

artículo científico publicado en 2013

Extraordinary genome stability in the ciliate Paramecium tetraurelia

artículo científico publicado en 2012

Genomic and Metagenomic Analysis of Diversity-Generating Retroelements Associated with Treponema denticola

artículo científico publicado en 2016

Harnessing the NEON data revolution to advance open environmental science with a diverse and data‐capable community

artículo científico publicado en 2021

Insertion sequence-caused large-scale rearrangements in the genome of Escherichia coli

artículo científico publicado en 2016

Insights into an Extensively Fragmented Eukaryotic Genome: De Novo Genome Sequencing of the Multinuclear Ciliate Uroleptopsis citrina.

artículo científico publicado en 2018

Insights into three whole-genome duplications gleaned from the Paramecium caudatum genome sequence.

artículo científico publicado en 2014

Limited Mutation-Rate Variation Within the Paramecium aurelia Species Complex.

artículo científico publicado en 2018

Low Base-Substitution Mutation Rate but High Rate of Slippage Mutations in the Sequence Repeat-Rich Genome of Dictyostelium discoideum

scientific article published on 30 July 2020

Mutation rate, spectrum, topology, and context-dependency in the DNA mismatch repair-deficient Pseudomonas fluorescens ATCC948.

artículo científico publicado en 2014

National Center for Genome Analysis support leverages XSEDE to support life science research

Oral spirochetes implicated in dental diseases are widespread in normal human subjects and carry extremely diverse integron gene cassettes

artículo científico publicado en 2012

Peptidergic signaling in Calanus finmarchicus (Crustacea, Copepoda): in silico identification of putative peptide hormones and their receptors using a de novo assembled transcriptome.

artículo científico publicado en 2013

Polynucleobacter necessarius, a model for genome reduction in both free-living and symbiotic bacteria.

artículo científico publicado en 2013

Population Genetics of Paramecium Mitochondrial Genomes: Recombination, Mutation Spectrum, and Efficacy of Selection

article

Population Genomics of Paramecium Species.

artículo científico publicado en 2017

RNA-mediated epigenetic programming of a genome-rearrangement pathway

artículo científico publicado en 2007

Reply to Massey: Drift does influence mutation-rate evolution

artículo científico publicado en 2013

Selection on the genes of Euplotes crassus Tec1 and Tec2 transposons: evolutionary appearance of a programmed frameshift in a Tec2 gene encoding a tyrosine family site-specific recombinase

artículo científico publicado en 2003

Selection on the protein-coding genes of the TBE1 family of transposable elements in the ciliates Oxytricha fallax and O. trifallax ⬇️

artículo científico publicado el 1 de julio de 1997

Sequence features of Oxytricha trifallax (class Spirotrichea) macronuclear telomeric and subtelomeric sequences.

artículo científico publicado en 2004

Sequencing the Oxytricha trifallax macronuclear genome: a pilot project

artículo científico publicado en 2003

Spliced DNA sequences in the Paramecium germline: their properties and evolutionary potential

artículo científico publicado en 2013

Stitching gene fragments with a network matching algorithm improves gene assembly for metagenomics

artículo científico publicado en 2012

Strand-specific community RNA-seq reveals prevalent and dynamic antisense transcription in human gut microbiota

artículo científico publicado en 2015

Subtractive assembly for comparative metagenomics, and its application to type 2 diabetes metagenomes

artículo científico publicado en 2015

Telomere formation on macronuclear chromosomes of Oxytricha trifallax and O. fallax: alternatively processed regions have multiple telomere addition sites.

artículo científico publicado en 2002

The Oxytricha trifallax macronuclear genome: a complex eukaryotic genome with 16,000 tiny chromosomes

artículo científico publicado en 2013

The Oxytricha trifallax mitochondrial genome

artículo científico publicado en 2011

The Rate and Spectrum of Spontaneous Mutations in Mycobacterium smegmatis, a Bacterium Naturally Devoid of the Postreplicative Mismatch Repair Pathway

artículo científico publicado en 2016

The Spontaneous Mutation Rate in the Fission Yeast Schizosaccharomyces pombe

artículo científico publicado en 2015

The architecture of a scrambled genome reveals massive levels of genomic rearrangement during development

artículo científico publicado en 2014

The gain and loss of chromosomal integron systems in the Treponema species

artículo científico publicado en 2013

The pathway to detangle a scrambled gene

artículo científico publicado en 2008

Lista de obras de Thomas G Doak

A functional role for transposases in a large eukaryotic genome

A genomic survey of Reb homologs suggests widespread occurrence of R-bodies in proteobacteria.

A parsimony approach to biological pathway reconstruction/inference for genomes and metagenomes

ADFinder: accurate detection of programmed DNA elimination using NGS high-throughput sequencing data

Artificial functional difference between microbial communities caused by length difference of sequencing reads

Background Mutational Features of the Radiation-Resistant Bacterium Deinococcus radiodurans

Bats use magnetite to detect the earth's magnetic field

CRISPR-Cas systems target a diverse collection of invasive mobile genetic elements in human microbiomes

Characterization and taxonomic validity of the ciliate Oxytricha trifallax (Class Spirotrichea) based on multiple gene sequences: limitations in identifying genera solely by morphology

Coding properties of Oxytricha trifallax (Sterkiella histriomuscorum) macronuclear chromosomes: analysis of a pilot genome project

Comparing bacterial communities inferred from 16S rRNA gene sequencing and shotgun metagenomics

Conserved features of TBE1 transposons in ciliated protozoa

Copy number variations of 11 macronuclear chromosomes and their gene expression in Oxytricha trifallax

Differential retention and divergent resolution of duplicate genes following whole-genome duplication

Disentangling the Taxonomy of Rickettsiales and Description of Two Novel Symbionts ("Candidatus Bealeia paramacronuclearis" and "Candidatus Fokinia cryptica") Sharing the Cytoplasm of the Ciliate Protist Paramecium biaurelia

Diverse CRISPRs evolving in human microbiomes.

Diversity and Universality of Endosymbiotic Rickettsia in the Fish Parasite Ichthyophthirius multifiliis

Draft Genome Sequence of Caedibacter varicaedens, a Kappa Killer Endosymbiont Bacterium of the Ciliate Paramecium biaurelia

Drift-barrier hypothesis and mutation-rate evolution.

Escherichia coli cultures maintain stable subpopulation structure during long-term evolution.

Estimating Seven Coefficients of Pairwise Relatedness Using Population-Genomic Data.

Estimating seven coefficients of pairwise relatedness using population genomic data

Estimation of the Genome-Wide Mutation Rate and Spectrum in the Archaeal Species Haloferax volcanii

Expanding the catalog of cas genes with metagenomes

Extraordinary genome stability in the ciliate Paramecium tetraurelia

Genomic and Metagenomic Analysis of Diversity-Generating Retroelements Associated with Treponema denticola

Harnessing the NEON data revolution to advance open environmental science with a diverse and data‐capable community

Insertion sequence-caused large-scale rearrangements in the genome of Escherichia coli

Insights into an Extensively Fragmented Eukaryotic Genome: De Novo Genome Sequencing of the Multinuclear Ciliate Uroleptopsis citrina.

Insights into three whole-genome duplications gleaned from the Paramecium caudatum genome sequence.

Limited Mutation-Rate Variation Within the Paramecium aurelia Species Complex.

Low Base-Substitution Mutation Rate but High Rate of Slippage Mutations in the Sequence Repeat-Rich Genome of Dictyostelium discoideum

Mutation rate, spectrum, topology, and context-dependency in the DNA mismatch repair-deficient Pseudomonas fluorescens ATCC948.

National Center for Genome Analysis support leverages XSEDE to support life science research

Oral spirochetes implicated in dental diseases are widespread in normal human subjects and carry extremely diverse integron gene cassettes

Peptidergic signaling in Calanus finmarchicus (Crustacea, Copepoda): in silico identification of putative peptide hormones and their receptors using a de novo assembled transcriptome.

Polynucleobacter necessarius, a model for genome reduction in both free-living and symbiotic bacteria.

Population Genetics of Paramecium Mitochondrial Genomes: Recombination, Mutation Spectrum, and Efficacy of Selection

Population Genomics of Paramecium Species.

RNA-mediated epigenetic programming of a genome-rearrangement pathway

Reply to Massey: Drift does influence mutation-rate evolution

Selection on the genes of Euplotes crassus Tec1 and Tec2 transposons: evolutionary appearance of a programmed frameshift in a Tec2 gene encoding a tyrosine family site-specific recombinase

Selection on the protein-coding genes of the TBE1 family of transposable elements in the ciliates Oxytricha fallax and O. trifallax ⬇️

Sequence features of Oxytricha trifallax (class Spirotrichea) macronuclear telomeric and subtelomeric sequences.

Sequencing the Oxytricha trifallax macronuclear genome: a pilot project

Spliced DNA sequences in the Paramecium germline: their properties and evolutionary potential

Stitching gene fragments with a network matching algorithm improves gene assembly for metagenomics

Strand-specific community RNA-seq reveals prevalent and dynamic antisense transcription in human gut microbiota

Subtractive assembly for comparative metagenomics, and its application to type 2 diabetes metagenomes

Telomere formation on macronuclear chromosomes of Oxytricha trifallax and O. fallax: alternatively processed regions have multiple telomere addition sites.

The Oxytricha trifallax macronuclear genome: a complex eukaryotic genome with 16,000 tiny chromosomes

The Oxytricha trifallax mitochondrial genome

The Rate and Spectrum of Spontaneous Mutations in Mycobacterium smegmatis, a Bacterium Naturally Devoid of the Postreplicative Mismatch Repair Pathway

The Spontaneous Mutation Rate in the Fission Yeast Schizosaccharomyces pombe

The architecture of a scrambled genome reveals massive levels of genomic rearrangement during development

The gain and loss of chromosomal integron systems in the Treponema species

The pathway to detangle a scrambled gene