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List of works by Christopher J. Creevey

A computational screen for type I polyketide synthases in metagenomics shotgun data

scientific article

AQUA: automated quality improvement for multiple sequence alignments

scientific article published on 19 November 2009

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

scientific article published on 25 September 2018

Adult schistosomes have an epithelial bacterial population distinct from the surrounding mammalian host blood

An algorithm for detecting directional and non-directional positive selection, neutrality and negative selection in protein coding DNA sequences

scientific article published in October 2002

An ultra-high density genetic linkage map of perennial ryegrass (Lolium perenne) using genotyping by sequencing (GBS) based on a reference shotgun genome assembly

scientific article

Analysis of the Rumen Microbiome and Metabolome to Study the Effect of an Antimethanogenic Treatment Applied in Early Life of Kid Goats

scientific article published on 09 October 2018

Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified

scientific article

Buwchitin: A Ruminal Peptide with Antimicrobial Potential against Enterococcus faecalis.

scientific article

CRANN: detecting adaptive evolution in protein-coding DNA sequences

scientific article published on 01 September 2003

Changes in the Total Fecal Bacterial Population in Individual Horses Maintained on a Restricted Diet Over 6 Weeks.

scientific article published on 11 August 2017

Clann: investigating phylogenetic information through supertree analyses

scientific article

Comparative metagenomic and metatranscriptomic analyses reveal the breed effect on the rumen microbiome and its associations with feed efficiency in beef cattle

scientific article published on 14 January 2019

Concatabominations: identifying unstable taxa in morphological phylogenetics using a heuristic extension to safe taxonomic reduction

scientific article

Consistent mutational paths predict eukaryotic thermostability

scientific article

CowPI: A Rumen Microbiome Focussed Version of the PICRUSt Functional Inference Software. ⬇️

scientific article

Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection.

scientific article published on 19 March 2018

Deep sequence analysis reveals the ovine rumen as a reservoir of antibiotic resistance genes.

scientific article published on 11 January 2018

Detecting adaptive molecular evolution: additional tools for the parasitologist

scientific article published on January 2003

Determining the culturability of the rumen bacterial microbiome

scientific article

Differential gene expression in the endometrium reveals cytoskeletal and immunological genes in lactating dairy cows genetically divergent for fertility traits

article by Bruce Moran et al published 2015 in Reproduction, Fertility and Development

Divergent functional isoforms drive niche specialisation for nutrient acquisition and use in rumen microbiome

scientific article published on 01 June 2017

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

scientific article published in 2014

Does a tree-like phylogeny only exist at the tips in the prokaryotes?

scholarly article by Christopher J. Creevey et al published 22 December 2004 in Proceedings of the Royal Society B

Duplicate retention in signalling proteins and constraints from network dynamics.

scientific article published on 6 September 2010

Effect of short term diet restriction on gene expression in the bovine hypothalamus using next generation RNA sequencing technology

scientific article published on 9 November 2017

Evidence of positive Darwinian selection in putative meningococcal vaccine antigens

scientific article published on 29 June 2005

Fatty acid biosynthesis in Mycobacterium tuberculosis: lateral gene transfer, adaptive evolution, and gene duplication

scientific article published on 13 August 2003

Fecal Microbiota Transplantation in Gestating Sows and Neonatal Offspring Alters Lifetime Intestinal Microbiota and Growth in Offspring.

scientific article published on 13 March 2018

Fertility and genomics: comparison of gene expression in contrasting reproductive tissues of female cattle.

scientific article

Gene Fusions Derived by Transcriptional Readthrough are Driven by Segmental Duplication in Human

scientific article published on 01 September 2019

Genome Phylogenies Indicate a Meaningful α-Proteobacterial Phylogeny and Support a Grouping of the Mitochondria with the Rickettsiales

scholarly article by David A. Fitzpatrick et al published 8 September 2005 in Molecular Biology and Evolution

Genome sequence of Ensifer adhaerens OV14 provides insights into its ability as a novel vector for the genetic transformation of plant genomes

scientific article

Genome-wide experimental determination of barriers to horizontal gene transfer.

scientific article published on 18 October 2007

Global endometrial transcriptomic profiling: transient immune activation precedes tissue proliferation and repair in healthy beef cows

scientific article

Horizontal gene flow from Eubacteria to Archaebacteria and what it means for our understanding of eukaryogenesis

scientific article

Identifying single copy orthologs in Metazoa

scientific article published on December 2011

Implementing and testing Bayesian and maximum-likelihood supertree methods in phylogenetics

scientific article

Inadvertent Paralog Inclusion Drives Artifactual Topologies and Timetree Estimates in Phylogenomics

article

Insights into the skin of caecilian amphibians from gene expression profiles

scientific article published on 27 July 2020

L.U.St: a tool for approximated maximum likelihood supertree reconstruction

scientific article

Meta-proteomics of rumen microbiota indicates niche compartmentalisation and functional dominance in a limited number of metabolic pathways between abundant bacteria.

scientific article published on 12 July 2018

Metasecretome-selective phage display approach for mining the functional potential of a rumen microbial community

scientific article

Mitochondrial data are not suitable for resolving placental mammal phylogeny

scientific article

Multi-tissue transcriptomes of caecilian amphibians highlight incomplete knowledge of vertebrate gene families

article

Polymorphism discovery and allele frequency estimation using high-throughput DNA sequencing of target-enriched pooled DNA samples

scientific article

RNA-seq analysis of differential gene expression in liver from lactating dairy cows divergent in negative energy balance

scientific article

Rumen Methanogenic Genotypes Differ in Abundance According to Host Residual Feed Intake Phenotype and Diet Type.

scientific article

Rumen methanogenic genotypes differ in abundance according to host residual feed intake phenotype and diet type

scientific article

STRING 8--a global view on proteins and their functional interactions in 630 organisms

scientific article

Signatures of the evolution of parthenogenesis and cryptobiosis in panagrolaimid nematodes

Snpdat: Easy and rapid annotation of results from de novo snp discovery projects for model and non-model organisms

scientific article

Spherical: an iterative workflow for assembling metagenomic datasets

scientific article published on 24 January 2018

Temporal dynamics of the metabolically active rumen bacteria colonizing fresh perennial ryegrass.

scientific article published on 4 November 2015

The Opisthokonta and the Ecdysozoa may not be clades: stronger support for the grouping of plant and animal than for animal and fungi and stronger support for the Coelomata than Ecdysozoa

scientific article

The integration of 'omic' disciplines and systems biology in cattle breeding.

scientific article published on February 2011

The rumen microbiome: an underexplored resource for novel antimicrobial discovery.

scientific article published in December 2017

The shape of supertrees to come: tree shape related properties of fourteen supertree methods

scientific article published in June 2005

Toward Automatic Reconstruction of a Highly Resolved Tree of Life

scientific article

Transcriptomics of liver and muscle in Holstein cows genetically divergent for fertility highlight differences in nutrient partitioning and inflammation processes

scientific article

Trees from trees: construction of phylogenetic supertrees using clann

scientific article published in January 2009

Universally distributed single-copy genes indicate a constant rate of horizontal transfer

scientific article

Using the forces of hydrodynamic countercurrent chromatography for the study of bacteriophages

scientific article published on 24 February 2022

Visualization of multiple alignments, phylogenies and gene family evolution

scientific article published on March 2010

What lies beneath? Molecular evolution during the radiation of caecilian amphibians

scientific article published on 09 May 2019

Whole genome association study identifies regions of the bovine genome and biological pathways involved in carcass trait performance in Holstein-Friesian cattle

scientific article

eggNOG v4.0: nested orthology inference across 3686 organisms

scientific article (publication date: December 2013)

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