Lista de obras - Mick Watson - Dominio Público Uruguay

1200 high-quality metagenome-assembled genomes from the rumen of African cattle and their relevance in the context of sub-optimal feeding

scientific article published on 03 September 2020

A Review of Bioinformatics Tools for Bio-Prospecting from Metagenomic Sequence Data

artículo científico publicado en 2017

A high resolution atlas of gene expression in the domestic sheep (Ovis aries).

artículo científico publicado en 2017

A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data

artículo científico publicado en 2015

Ability of the Encephalitic Arbovirus Semliki Forest Virus To Cross the Blood-Brain Barrier Is Determined by the Charge of the E2 Glycoprotein

artículo científico publicado en 2015

Activation of gga-miR-155 by reticuloendotheliosis virus T strain and its contribution to transformation

artículo científico publicado en 2017

Addressing Global Ruminant Agricultural Challenges Through Understanding the Rumen Microbiome: Past, Present, and Future

artículo científico publicado en 2018

Aedes aegypti Piwi4 Is a Noncanonical PIWI Protein Involved in Antiviral Responses ⬇️

artículo científico publicado en 2017

An ADAMTS3 missense variant is associated with Norwich Terrier upper airway syndrome

scientific article published on 16 May 2019

An avian retrovirus uses canonical expression and processing mechanisms to generate viral microRNA.

artículo científico publicado en 2013

Analysis of a simulated microarray dataset: comparison of methods for data normalisation and detection of differential expression (open access publication).

artículo científico publicado en 2007

Analysis of the real EADGENE data set: comparison of methods and guidelines for data normalisation and selection of differentially expressed genes (open access publication)

artículo científico publicado en 2007

Analysis of the real EADGENE data set: multivariate approaches and post analysis (open access publication)

artículo científico publicado en 2007

Analysis of the role of 13 major fimbrial subunits in colonisation of the chicken intestines by Salmonella enterica serovar Enteritidis reveals a role for a novel locus

artículo científico publicado en 2008

Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen.

artículo científico publicado en 2018

Assembly of hundreds of microbial genomes from the cow rumen reveals novel microbial species encoding enzymes with roles in carbohydrate metabolism

article published in 2017

Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

scientific article published on 02 August 2019

Bovine Host Genetic Variation Influences Rumen Microbial Methane Production with Best Selection Criterion for Low Methane Emitting and Efficiently Feed Converting Hosts Based on Metagenomic Gene Abundance

artículo científico publicado en 2016

CORNA: testing gene lists for regulation by microRNAs

artículo científico publicado en 2009

Characterisation of the British honey bee metagenome

artículo científico publicado en 2018

Chromosome Level Genome Assembly and Comparative Genomics between Three Falcon Species Reveals an Unusual Pattern of Genome Organisation

CoXpress: differential co-expression in gene expression data

artículo científico publicado en 2006

Comparative genome analysis of Salmonella Enteritidis PT4 and Salmonella Gallinarum 287/91 provides insights into evolutionary and host adaptation pathways

artículo científico publicado en 2008

Comparison of three microarray probe annotation pipelines: differences in strategies and their effect on downstream analysis.

artículo científico publicado en 2009

Compendium of 4,941 rumen metagenome-assembled genomes for rumen microbiome biology and enzyme discovery

artículo científico publicado en 2019

Complete genome sequences of elephant endotheliotropic herpesviruses 1A and 1B determined directly from fatal cases

artículo científico publicado en 2013

Correlation between lymph node pathology and chemokine expression during bovine tuberculosis

artículo científico publicado en 2009

Definition of the cattle killer cell Ig-like receptor gene family: comparison with aurochs and human counterparts

artículo científico publicado en 2014

Design and development of exome capture sequencing for the domestic pig (Sus scrofa).

artículo científico publicado en 2014

DetectiV: visualization, normalization and significance testing for pathogen-detection microarray data

artículo científico publicado en 2007

Differential expression of microRNAs in Marek's disease virus-transformed T-lymphoma cell lines

artículo científico publicado en 2009

Differential protein profiling as a potential multi-marker approach for TSE diagnosis

artículo científico publicado en 2009

Differentially expressed genes during spontaneous lytic switch of Marek's disease virus in lymphoblastoid cell lines determined by global gene expression profiling

artículo científico publicado en 2017

Diversity and community composition of methanogenic archaea in the rumen of Scottish upland sheep assessed by different methods

artículo científico publicado en 2014

Early response of bovine alveolar macrophages to infection with live and heat-killed Mycobacterium bovis

artículo científico publicado en 2011

Errors in RNA-Seq quantification affect genes of relevance to human disease

artículo científico publicado en 2015

Errors in long-read assemblies can critically affect protein prediction

scientific article published on 01 February 2019

Exome Sequencing: Current and Future Perspectives

artículo científico publicado en 2015

Extensive microbial diversity within the chicken gut microbiome revealed by metagenomics and culture

artículo científico publicado en 2021

Fat accretion measurements strengthen the relationship between feed conversion efficiency and Nitrogen isotopic discrimination while rumen microbial genes contribute little.

artículo científico publicado en 2018

GO-FAANG meeting: a Gathering On Functional Annotation of Animal Genomes

scientific article published on 24 July 2016

Gene flow in environmental Legionella pneumophila leads to genetic and pathogenic heterogeneity within a Legionnaires' disease outbreak

artículo científico publicado en 2014

Genome sequences of Salmonella enterica serovar typhimurium, Choleraesuis, Dublin, and Gallinarum strains of well- defined virulence in food-producing animals

artículo científico publicado en 2011

Global gene expression profiling of myeloid immune cell subsets in response to in vitro challenge with porcine circovirus 2b

artículo científico publicado en 2014

Granulocyte chemotactic properties of M. tuberculosis versus M. bovis-infected bovine alveolar macrophages

artículo científico publicado en 2007

IMAD: flexible annotation of microarray sequences

artículo científico publicado en 2009

Identification and annotation of conserved promoters and macrophage-expressed genes in the pig genome

artículo científico publicado en 2015

Identification of Low-Confidence Regions in the Pig Reference Genome (Sscrofa10.2).

artículo científico publicado en 2015

Identification of Rumen Microbial Genes Involved in Pathways Linked to Appetite, Growth, and Feed Conversion Efficiency in Cattle

artículo científico publicado en 2019

Identification, Comparison, and Validation of Robust Rumen Microbial Biomarkers for Methane Emissions Using Diverse Bos Taurus Breeds and Basal Diets.

artículo científico publicado en 2017

Illuminating the future of DNA sequencing

artículo científico publicado en 2014

Induction and suppression of tick cell antiviral RNAi responses by tick-borne flaviviruses

artículo científico publicado en 2014

Ixodes scapularis and Ixodes ricinus tick cell lines respond to infection with tick-borne encephalitis virus: transcriptomic and proteomic analysis

artículo científico publicado en 2015

Knockdown of piRNA pathway proteins results in enhanced Semliki Forest virus production in mosquito cells

artículo científico publicado en 2013

Knockdown of piRNA pathway proteins results in enhanced Semliki Forest virus production in mosquito cells

Large-scale integration of MicroRNA and gene expression data for identification of enriched microRNA-mRNA associations in biological systems

artículo científico publicado en 2010

Livestock 2.0 - genome editing for fitter, healthier, and more productive farmed animals

artículo científico publicado en 2018

Low coverage sequencing of two Asian elephant (Elephas maximus) genomes

artículo científico publicado en 2014

MAGpy: a reproducible pipeline for the downstream analysis of metagenome-assembled genomes (MAGs).

artículo científico publicado en 2019

Marek's Disease Virus-Encoded MicroRNA 155 Ortholog Critical for the Induction of Lymphomas Is Not Essential for the Proliferation of Transformed Cell Lines

scientific article published on 13 August 2019

Meta4: a web application for sharing and annotating metagenomic gene predictions using web services

artículo científico publicado en 2013

Methods for interpreting lists of affected genes obtained in a DNA microarray experiment

artículo científico publicado en 2009

MicroRNA expression profiles in avian haemopoietic cells

artículo científico publicado en 2013

MicroRNA profile of Marek's disease virus-transformed T-cell line MSB-1: predominance of virus-encoded microRNAs

artículo científico publicado en 2008

MinION™ nanopore sequencing of environmental metagenomes: a synthetic approach

artículo científico publicado en 2017

Mind the gaps - ignoring errors in long read assemblies critically affects protein prediction

Novel microRNAs (miRNAs) encoded by herpesvirus of Turkeys: evidence of miRNA evolution by duplication

artículo científico publicado en 2009

Novel microRNAs encoded by duck enteritis virus

artículo científico publicado en 2012

ProGenExpress: visualization of quantitative data on prokaryotic genomes

artículo científico publicado en 2005

Quality assessment and control of high-throughput sequencing data

artículo científico publicado en 2014

RNA Interference Restricts Rift Valley Fever Virus in Multiple Insect Systems

artículo científico publicado en 2017

RNA interference targets arbovirus replication in Culicoides cells

artículo científico publicado en 2012

Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing

artículo científico publicado en 2016

Regional and global changes in TCRalphabeta T cell repertoires in the gut are dependent upon the complexity of the enteric microflora

artículo científico publicado en 2009

Resolution of the type material of the Asian elephant,Elephas maximusLinnaeus, 1758 (Proboscidea, Elephantidae)

article

Role of Cecal Microbiota in the Differential Resistance of Inbred Chicken Lines to Colonization by Campylobacter jejuni

artículo científico publicado en 2020

Salmonella enterica Serovar Typhimurium Colonizing the Lumen of the Chicken Intestine Grows Slowly and Upregulates a Unique Set of Virulence and Metabolism Genes ⬇️

artículo científico publicado el 18 de julio de 2011

So you want to be a computational biologist?

artículo científico publicado en 2013

Successful test launch for nanopore sequencing

artículo científico publicado en 2015

Tandem Amplification of the Staphylococcal Cassette Chromosome mec Element Can Drive High-Level Methicillin Resistance in Methicillin-Resistant Staphylococcus aureus.

artículo científico

The Antiviral RNAi Response in Vector and Non-vector Cells against Orthobunyaviruses

artículo científico publicado en 2017

The EADGENE Microarray Data Analysis Workshop (open access publication).

artículo científico publicado en 2007

The GOBLET training portal: a global repository of bioinformatics training materials, courses and trainers

artículo científico publicado en 2014

The automatic annotation of bacterial genomes

artículo científico publicado en 2012

The bovine chemokine receptors and their mRNA abundance in mononuclear phagocytes.

artículo científico publicado en 2010

The incredible complexity of RNA splicing.

artículo científico publicado en 2016

The madness of microbiome: Attempting to find consensus "best practice" for 16S microbiome studies.

artículo científico publicado en 2018

The rumen microbial metagenome associated with high methane production in cattle

artículo científico publicado en 2015

The rumen microbiome as a reservoir of antimicrobial resistance and pathogenicity genes is directly affected by diet in beef cattle

artículo científico publicado en 2017

Transcriptional Response of Ovine Lung to Infection with Jaagsiekte Sheep Retrovirus

artículo científico publicado en 2019

Use of GenMAPP and MAPPFinder to analyse pathways involved in chickens infected with the protozoan parasite Eimeria

artículo científico publicado en 2009

Visualization and analysis of RNA-Seq assembly graphs

artículo científico publicado en 2019

Vru (Sub0144) controls expression of proven and putative virulence determinants and alters the ability of Streptococcus uberis to cause disease in dairy cattle

artículo científico publicado en 2012

When will 'open science' become simply 'science'?

artículo científico publicado en 2015

Whole-Genome Sequence Data Suggest Environmental Adaptation of Ethiopian Sheep Populations

artículo científico publicado en 2021

poRe GUIs for parallel and real-time processing of MinION sequence data

artículo científico publicado en 2017

poRe GUIs for parallel and real-time processing of MinION sequence data

article

poRe: an R package for the visualization and analysis of nanopore sequencing data

artículo científico publicado en 2014

viRome: an R package for the visualization and analysis of viral small RNA sequence datasets

artículo científico publicado en 2013

Lista de obras de Mick Watson

1200 high-quality metagenome-assembled genomes from the rumen of African cattle and their relevance in the context of sub-optimal feeding

A Review of Bioinformatics Tools for Bio-Prospecting from Metagenomic Sequence Data

A high resolution atlas of gene expression in the domestic sheep (Ovis aries).

A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data

Ability of the Encephalitic Arbovirus Semliki Forest Virus To Cross the Blood-Brain Barrier Is Determined by the Charge of the E2 Glycoprotein

Activation of gga-miR-155 by reticuloendotheliosis virus T strain and its contribution to transformation

Addressing Global Ruminant Agricultural Challenges Through Understanding the Rumen Microbiome: Past, Present, and Future

Aedes aegypti Piwi4 Is a Noncanonical PIWI Protein Involved in Antiviral Responses ⬇️

An ADAMTS3 missense variant is associated with Norwich Terrier upper airway syndrome

An avian retrovirus uses canonical expression and processing mechanisms to generate viral microRNA.

Analysis of a simulated microarray dataset: comparison of methods for data normalisation and detection of differential expression (open access publication).

Analysis of the real EADGENE data set: comparison of methods and guidelines for data normalisation and selection of differentially expressed genes (open access publication)

Analysis of the real EADGENE data set: multivariate approaches and post analysis (open access publication)

Analysis of the role of 13 major fimbrial subunits in colonisation of the chicken intestines by Salmonella enterica serovar Enteritidis reveals a role for a novel locus

Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen.

Assembly of hundreds of microbial genomes from the cow rumen reveals novel microbial species encoding enzymes with roles in carbohydrate metabolism

Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

Bovine Host Genetic Variation Influences Rumen Microbial Methane Production with Best Selection Criterion for Low Methane Emitting and Efficiently Feed Converting Hosts Based on Metagenomic Gene Abundance

CORNA: testing gene lists for regulation by microRNAs

Characterisation of the British honey bee metagenome

Chromosome Level Genome Assembly and Comparative Genomics between Three Falcon Species Reveals an Unusual Pattern of Genome Organisation

CoXpress: differential co-expression in gene expression data

Comparative genome analysis of Salmonella Enteritidis PT4 and Salmonella Gallinarum 287/91 provides insights into evolutionary and host adaptation pathways

Comparison of three microarray probe annotation pipelines: differences in strategies and their effect on downstream analysis.

Compendium of 4,941 rumen metagenome-assembled genomes for rumen microbiome biology and enzyme discovery

Complete genome sequences of elephant endotheliotropic herpesviruses 1A and 1B determined directly from fatal cases

Correlation between lymph node pathology and chemokine expression during bovine tuberculosis

Definition of the cattle killer cell Ig-like receptor gene family: comparison with aurochs and human counterparts

Design and development of exome capture sequencing for the domestic pig (Sus scrofa).

DetectiV: visualization, normalization and significance testing for pathogen-detection microarray data

Differential expression of microRNAs in Marek's disease virus-transformed T-lymphoma cell lines

Differential protein profiling as a potential multi-marker approach for TSE diagnosis

Differentially expressed genes during spontaneous lytic switch of Marek's disease virus in lymphoblastoid cell lines determined by global gene expression profiling

Diversity and community composition of methanogenic archaea in the rumen of Scottish upland sheep assessed by different methods

Early response of bovine alveolar macrophages to infection with live and heat-killed Mycobacterium bovis

Errors in RNA-Seq quantification affect genes of relevance to human disease

Errors in long-read assemblies can critically affect protein prediction

Exome Sequencing: Current and Future Perspectives

Extensive microbial diversity within the chicken gut microbiome revealed by metagenomics and culture

Fat accretion measurements strengthen the relationship between feed conversion efficiency and Nitrogen isotopic discrimination while rumen microbial genes contribute little.

GO-FAANG meeting: a Gathering On Functional Annotation of Animal Genomes

Gene flow in environmental Legionella pneumophila leads to genetic and pathogenic heterogeneity within a Legionnaires' disease outbreak

Genome sequences of Salmonella enterica serovar typhimurium, Choleraesuis, Dublin, and Gallinarum strains of well- defined virulence in food-producing animals

Global gene expression profiling of myeloid immune cell subsets in response to in vitro challenge with porcine circovirus 2b

Granulocyte chemotactic properties of M. tuberculosis versus M. bovis-infected bovine alveolar macrophages

IMAD: flexible annotation of microarray sequences

Identification and annotation of conserved promoters and macrophage-expressed genes in the pig genome

Identification of Low-Confidence Regions in the Pig Reference Genome (Sscrofa10.2).

Identification of Rumen Microbial Genes Involved in Pathways Linked to Appetite, Growth, and Feed Conversion Efficiency in Cattle

Identification, Comparison, and Validation of Robust Rumen Microbial Biomarkers for Methane Emissions Using Diverse Bos Taurus Breeds and Basal Diets.

Illuminating the future of DNA sequencing

Induction and suppression of tick cell antiviral RNAi responses by tick-borne flaviviruses

Ixodes scapularis and Ixodes ricinus tick cell lines respond to infection with tick-borne encephalitis virus: transcriptomic and proteomic analysis

Knockdown of piRNA pathway proteins results in enhanced Semliki Forest virus production in mosquito cells

Knockdown of piRNA pathway proteins results in enhanced Semliki Forest virus production in mosquito cells

Large-scale integration of MicroRNA and gene expression data for identification of enriched microRNA-mRNA associations in biological systems

Livestock 2.0 - genome editing for fitter, healthier, and more productive farmed animals

Low coverage sequencing of two Asian elephant (Elephas maximus) genomes

MAGpy: a reproducible pipeline for the downstream analysis of metagenome-assembled genomes (MAGs).

Marek's Disease Virus-Encoded MicroRNA 155 Ortholog Critical for the Induction of Lymphomas Is Not Essential for the Proliferation of Transformed Cell Lines

Meta4: a web application for sharing and annotating metagenomic gene predictions using web services

Methods for interpreting lists of affected genes obtained in a DNA microarray experiment

MicroRNA expression profiles in avian haemopoietic cells

MicroRNA profile of Marek's disease virus-transformed T-cell line MSB-1: predominance of virus-encoded microRNAs

MinION™ nanopore sequencing of environmental metagenomes: a synthetic approach

Mind the gaps - ignoring errors in long read assemblies critically affects protein prediction

Novel microRNAs (miRNAs) encoded by herpesvirus of Turkeys: evidence of miRNA evolution by duplication

Novel microRNAs encoded by duck enteritis virus

ProGenExpress: visualization of quantitative data on prokaryotic genomes

Quality assessment and control of high-throughput sequencing data

RNA Interference Restricts Rift Valley Fever Virus in Multiple Insect Systems

RNA interference targets arbovirus replication in Culicoides cells

Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing

Regional and global changes in TCRalphabeta T cell repertoires in the gut are dependent upon the complexity of the enteric microflora

Resolution of the type material of the Asian elephant,Elephas maximusLinnaeus, 1758 (Proboscidea, Elephantidae)

Role of Cecal Microbiota in the Differential Resistance of Inbred Chicken Lines to Colonization by Campylobacter jejuni

Salmonella enterica Serovar Typhimurium Colonizing the Lumen of the Chicken Intestine Grows Slowly and Upregulates a Unique Set of Virulence and Metabolism Genes ⬇️

So you want to be a computational biologist?

Successful test launch for nanopore sequencing