List of works by Thomas M. Keane

A Requirement for Zic2 in the Regulation of Nodal Expression Underlies the Establishment of Left-Sided Identity.

scientific article published on 11 July 2018

A comparative phenotypic and genomic analysis of C57BL/6J and C57BL/6N mouse strains

scientific article

A dominantly acting murine allele of Mcm4 causes chromosomal abnormalities and promotes tumorigenesis

scientific article

A simple method for directional transcriptome sequencing using Illumina technology

scientific article

A strategy to identify dominant point mutant modifiers of a quantitative trait

scientific article

ABACAS: algorithm-based automatic contiguation of assembled sequences

scientific article published on 3 June 2009

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

Chromosome assembly of large and complex genomes using multiple references

scientific article published on 19 October 2018

Citrobacter rodentium is an unstable pathogen showing evidence of significant genomic flux

scientific article published in April 2011

Comparative Annotation Toolkit (CAT) - simultaneous clade and personal genome annotation

article published in 2017

Comparative Annotation Toolkit (CAT)-simultaneous clade and personal genome annotation

Contributions of protein-coding and regulatory change to adaptive molecular evolution in murid rodents

scientific article

Crypt4GH: a file format standard enabling native access to encrypted data

scientific article published in 2021

DPRml: distributed phylogeny reconstruction by maximum likelihood.

scientific article

DSEARCH: sensitive database searching using distributed computing

scientific article published on 25 November 2004

De novo yeast genome assemblies from MinION, PacBio and MiSeq platforms

scientific article published on 21 June 2017

Deep genome sequencing and variation analysis of 13 inbred mouse strains defines candidate phenotypic alleles, private variation and homozygous truncating mutations

scientific article published on August 2016

Emergence of a three codon deletion in gag p17 in HIV type 1 subtype C long-term survivors, and general population spread

scientific article published in February 2006

Enhanced structural variant and breakpoint detection using SVMerge by integration of multiple detection methods and local assembly

scientific article published on 31 December 2010

GA4GH: International policies and standards for data sharing across genomic research and healthcare

scientific article published on 10 November 2021

Genome sequencing reveals loci under artificial selection that underlie disease phenotypes in the laboratory rat

scientific article published on 25 July 2013

Genome-wide end-sequenced BAC resources for the NOD/MrkTac() and NOD/ShiLtJ() mouse genomes

scientific article

Genome-wide genetic screening with chemically mutagenized haploid embryonic stem cells

scientific article published on 31 October 2016

Genomic analysis of a novel spontaneous albino C57BL/6N mouse strain

scientific article published on 25 May 2013

Genomic and proteomic dissection of the ubiquitous plant pathogen, Armillaria mellea: toward a new infection model system

scientific article published on 28 May 2013

Go retro and get a GRIP.

scientific article published on 19 March 2013

High levels of RNA-editing site conservation amongst 15 laboratory mouse strains

scientific article

Identification of structural variation in mouse genomes

scientific article

Interplay between Gliotoxin Resistance, Secretion, and the Methyl/Methionine Cycle in Aspergillus fumigatus

scientific article published on 6 July 2015

Mouse genomic variation and its effect on phenotypes and gene regulation

scientific article (publication date: 14 September 2011)

Mouse protein coding diversity: What's left to discover?

scientific article published on 14 November 2019

MultiPhyl: a high-throughput phylogenomics webserver using distributed computing

scientific article published on 6 June 2007

Multiple laboratory mouse reference genomes define strain specific haplotypes and novel functional loci

Next-generation sequencing of experimental mouse strains

scientific article

Next-generation sequencing of vertebrate experimental organisms

scientific article published on 19 May 2009

Nonsense mutations in the shelterin complex genes ACD and TERF2IP in familial melanoma

scientific article

POT1 loss-of-function variants predispose to familial melanoma

scientific article

Plasmodium falciparum var gene expression is modified by host immunity

scientific article published on 11 December 2009

Proteomic Characterization of Armillaria mellea Reveals Oxidative Stress Response Mechanisms and Altered Secondary Metabolism Profiles

scientific article published on 17 September 2017

Pseudogenes in the mouse lineage: transcriptional activity and strain-specific history

RNA-seq reveals the pan-transcriptomic impact of attenuating the gliotoxin self-protection mechanism in Aspergillus fumigatus

scientific article

Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes.

scientific article published on 21 March 2018

RetroSeq: transposable element discovery from next-generation sequencing data

scientific article

Retrotransposon-induced heterochromatin spreading in the mouse revealed by insertional polymorphisms

scientific article

Sequence-based characterization of structural variation in the mouse genome

scientific article

Sequencing and characterization of the FVB/NJ mouse genome

scientific article

Similarities and differences in patterns of germline mutation between mice and humans

scientific article published on 06 September 2019

Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci

scientific article published on 01 October 2018

Structural Variation Shapes the Landscape of Recombination in Mouse.

scientific article published on June 2017

Synthetic viability genomic screening defines Sae2 function in DNA repair

scientific article

Targeting of Slc25a21 is associated with orofacial defects and otitis media due to disrupted expression of a neighbouring gene.

scientific article

The BRAF pseudogene functions as a competitive endogenous RNA and induces lymphoma in vivo.

scientific article

The European Genome-phenome Archive in 2021

scientific article published on 01 January 2022

The European Nucleotide Archive in 2017.

scientific article published on 13 November 2017

The European Nucleotide Archive in 2018

scientific article published on 01 January 2019

The Mouse Genomes Project: a repository of inbred laboratory mouse strain genomes

scientific article

The ancestor of extant Japanese fancy mice contributed to the mosaic genomes of classical inbred strains

scientific article published on 19 April 2013

The fine-scale architecture of structural variants in 17 mouse genomes

scientific article published on January 2012

The genomic landscape shaped by selection on transposable elements across 18 mouse strains

scientific article

The mutational landscapes of genetic and chemical models of Kras-driven lung cancer

scientific article

Transcriptional activity and strain-specific history of mouse pseudogenes

scientific article published on 29 July 2020

Using reference-free compressed data structures to analyze sequencing reads from thousands of human genomes

scientific article

Whole Genome Sequence of Two Wild-Derived Mus musculus domesticus Inbred Strains, LEWES/EiJ and ZALENDE/EiJ, with Different Diploid Numbers

scientific article published on 07 October 2016

htsget: a protocol for securely streaming genomic data

article

Paulina is supported by:

About Paulina

Help