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Desmond G Higgins

Institution

University College Dublin

Contact

Subjects

Biochemistry

Microbiology

Details
Publications 76
As first author 1
As last author 34
Unique topics 520
Collaborations 105
Sources 6
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2019
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2011
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2019
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Earlier

2019

An Integrated Global Analysis of Compartmentalized HRAS Signaling
2017

Clustal Omega for making accurate alignments of many protein sequences.
2017

Identification of fungi in shotgun metagenomics datasets.
2017

MyD88 is an essential component of retinoic acid-induced differentiation in human pluripotent embryonal carcinoma cells.
2017

The birth and death of olfactory receptor gene families in mammalian niche adaptation.
2016

Identification of Non-Coding RNAs in the Candida parapsilosis Species Group.
2016

Multiple Origins of the Pathogenic Yeast Candida orthopsilosis by Separate Hybridizations between Two Parental Species.
2016

ProViz-a web-based visualization tool to investigate the functional and evolutionary features of protein sequences.
2016

Prolyl hydroxylase-1 regulates hepatocyte apoptosis in an NF-κB-dependent manner.
2016

Protein multiple sequence alignment benchmarking through secondary structure prediction.
2016

Retinoic acid and TGF-β signalling cooperate to overcome MYCN-induced retinoid resistance.
2016

Wnt signalling is a bi-directional vulnerability of cancer cells
2015

Integrative omics reveals MYCN as a global suppressor of cellular signalling and enables network-based therapeutic target discovery in neuroblastoma.
2015

Measuring transcription rate changes via time-course 4-thiouridine pulse-labelling improves transcriptional target identification.
2015

OD-seq: outlier detection in multiple sequence alignments.
2015

Reply to Tan et al.: Differences between real and simulated proteins in multiple sequence alignments.
2015

Using de novo protein structure predictions to measure the quality of very large multiple sequence alignments.
2015

Wnt signalling is a bi-directional vulnerability of cancer cells.
2014

Clustal omega.
2014

Comparative phenotypic analysis of the major fungal pathogens Candida parapsilosis and Candida albicans.
2014

GWIPS-viz: development of a ribo-seq genome browser
2014

Genes and signaling networks regulated during zebrafish optic vesicle morphogenesis.
2014

Simple chained guide trees give high-quality protein multiple sequence alignments.
2014

Systematic exploration of guide-tree topology effects for small protein alignments.
2013

Clustal Omega, accurate alignment of very large numbers of sequences.
2013

GSK3 inhibitors regulate MYCN mRNA levels and reduce neuroblastoma cell viability through multiple mechanisms including p53 and Wnt signalling.
2013

GWIPS-viz: development of a ribo-seq genome browser.
2013

Loss of olfactory receptor function in hominin evolution.
2013

Making automated multiple alignments of very large numbers of protein sequences.
2012

Inhibition of the pim1 oncogene results in diminished visual function.
2012

Recombination in hepatitis C virus: identification of four novel naturally occurring inter-subtype recombinants.
2012

Using Illumina next generation sequencing technologies to sequence multigene families in de novo species.
2012

miR-187 is an independent prognostic factor in breast cancer and confers increased invasive potential in vitro.
2011

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega.
2011

Identification of novel inter-genotypic recombinants of human hepatitis B viruses by large-scale phylogenetic analysis.
2011

The Cu regulon of the human fungal pathogen Cryptococcus neoformans H99: Cuf1 activates distinct genes in response to both Cu excess and deficiency
2010

A complete analysis of HA and NA genes of influenza A viruses.
2010

Ensemble approach combining multiple methods improves human transcription start site prediction.
2010

Regulation of the hypoxic response in Candida albicans.
2010

Sequence embedding for fast construction of guide trees for multiple sequence alignment.
2010

Temporal dysregulation of cortical gene expression in the isolation reared Wistar rat.
2010

mab21l2 transgenics reveal novel expression patterns of mab21l1 and mab21l2, and conserved promoter regulation without sequence conservation.
2009

Analysis of differential gene expression in colorectal cancer and stroma using fluorescence-activated cell sorting purification.
2009

Detecting microRNA activity from gene expression data.
2009

High DNA melting temperature predicts transcription start site location in human and mouse.
2009

Integrating multiple genome annotation databases improves the interpretation of microarray gene expression data.
2008

Altered cytoplasmic-to-nuclear ratio of survivin is a prognostic indicator in breast cancer.
2008

Hypoxia selectively activates the CREB family of transcription factors in the in vivo lung.
2008

R-Coffee: a method for multiple alignment of non-coding RNA.
2007

A multivariate analysis approach to the integration of proteomic and gene expression data.
2007

CENP-F expression is associated with poor prognosis and chromosomal instability in patients with primary breast cancer.
2007

Clustal W and Clustal X version 2.0.
2007

Co-regulation of Gremlin and Notch signalling in diabetic nephropathy.
2007

Fast embedding methods for clustering tens of thousands of sequences.
2007

Gene expression, intron density, and splice site strength in Drosophila and Caenorhabditis.
2007

Influence of acute phytochemical intake on human urinary metabolomic profiles.
2007

Temporal change in gene expression in the rat dentate gyrus following passive avoidance learning.
2006

Analysis and comparison of benchmarks for multiple sequence alignment.
2006

Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data.
2006

Integrating transcription factor binding site information with gene expression datasets.
2006

M-Coffee: combining multiple sequence alignment methods with T-Coffee.
2006

Supervised multivariate analysis of sequence groups to identify specificity determining residues.
2005

Application of DNA microarray technology in determining breast cancer prognosis and therapeutic response.
2005

MADE4: an R package for multivariate analysis of gene expression data.
2005

Mind the gaps: progress in progressive alignment.
2005

Multiple sequence alignments.
2004

Evaluation of iterative alignment algorithms for multiple alignment.
2004

Maternally and paternally silenced imprinted genes differ in their intron content.
2003

3DCoffee: combining protein sequences and structures within multiple sequence alignments.
2003

Cross-platform comparison and visualisation of gene expression data using co-inertia analysis.
2003

Multiple sequence alignment with the Clustal series of programs
2002

Between-group analysis of microarray data.
2002

Overlapping antisense transcription in the human genome.
1998

Sequence analysis of DNA randomly amplified from the Saccharomyces cerevisiae genome.
1997

RAGA: RNA sequence alignment by genetic algorithm
1997

The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools

These arethe6 unique sources for Desmond G Higgins's 76 publications. A single publication may appear in multiple sources. Click on a name or publication count to see the publications for a particular source.

Source #
Ireland -> Maynooth University 3
Ireland -> Maynooth University -> PubMed 1
Ireland -> University College Cork 11
Ireland -> University College Cork -> PubMed 7
Ireland -> University College Dublin 63
Ireland -> University College Dublin -> PubMed 61

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