Tim Downing

Lecturer (Fixed Term) BA, MSc, PhD.

Contact Details

Lecturer (Fixed Term)
School of Mathematics
Statistics & Applied Mathematics
Room C302, Aras de Brun
NUI Galway

T: Ext. 4275
E: tim.downing@nuigalway.ie
 
researcher

Biography

Research interests include:
Bacterial genome assembly
Parasite evolution
Drug resistance
Pathogen adaptation
Human diversity
Population structure
Selective processes
Microbial virulence
Host susceptibility
Species hybridisation
Population genomics
Genotype inference
 

Research Interests

Parasite evolution
Drug resistance
Pathogen adaptation
Human diversity
Population structure
Selective processes
Microbial virulence
Host susceptibility
Species hybridisation
Population genomics
Genotype inference

Peer Reviewed Journals

  Year Publication
(2013) 'Genome-Wide Association Analysis of Avian Resistance to Campylobacter jejuni Colonization Identifies Risk Locus Spanning the CDH13 Gene'
Connell S, Meade KG, Allan B, Lloyd AT, Downing T, O'Farrelly C, Bradley DG (2013) 'Genome-Wide Association Analysis of Avian Resistance to Campylobacter jejuni Colonization Identifies Risk Locus Spanning the CDH13 Gene'. 3, [DOI] [Details]
(2013) '¬Genomic confirmation of hybridisation and recent inbreeding in a vector-isolated Leishmania population'
Downing T, et al. (2013) '¬Genomic confirmation of hybridisation and recent inbreeding in a vector-isolated Leishmania population'. Plos Pathogens, [Details]
(2012) 'Genetic markers for SSG-resistance in Leishmania donovani and SSG-treatment failure of visceral leishmaniasis patients in the Indian subcontinent'
Vanaerschot M, Decuypere S, Downing T, et al. (2012) 'Genetic markers for SSG-resistance in Leishmania donovani and SSG-treatment failure of visceral leishmaniasis patients in the Indian subcontinent'. Journal Of Infectious Diseases, [Details]
(2012) 'Novel adaptive mechanisms in pathogens: universal aneuploidy in Leishmania'
Mannaert A, Downing T, et al. (2012) 'Novel adaptive mechanisms in pathogens: universal aneuploidy in Leishmania'. Trends in parasitology, [Details]
(2012) 'Genome-wide SNP and microsatellite variation illuminate population-level epidemiology in the Leishmania donovani species complex'
Downing T, et al. (2012) 'Genome-wide SNP and microsatellite variation illuminate population-level epidemiology in the Leishmania donovani species complex'. Infection Genetics And Evolution, 12 :149-159 [Details]
(2012) 'The battle of the SNPs'
Downing T (2012) 'The battle of the SNPs'. Nature Reviews Immunology, 10 (1) [Details]
(2011) 'Whole genome sequencing of multiple Leishmania donovani cWhole genome sequencing of multiple Leishmania donovani cllinical isolates provides insights into population structure and mechanisms of drug resistance'
Downing T, et al. (2011) 'Whole genome sequencing of multiple Leishmania donovani cWhole genome sequencing of multiple Leishmania donovani cllinical isolates provides insights into population structure and mechanisms of drug resistance'. Genome Research, 21 (12):2143-2156 [Details]
(2010) 'The differential evolutionary dynamics of avian cytokine and toll-like receptor gene classes'
Downing T, et al. (2010) 'The differential evolutionary dynamics of avian cytokine and toll-like receptor gene classes'. J Immunol, 184 (12):6993-7000 [Details]
(2010) 'Variation in chicken populations may affect the enzymatic activity of lysozyme'
Downing T, et al. (2010) 'Variation in chicken populations may affect the enzymatic activity of lysozyme'. Animal Genetics, 41 (2):213-217 [Details]
(2009) 'Evidence of the adaptive evolution of immune genes in chicken'
Downing T, et al. (2009) 'Evidence of the adaptive evolution of immune genes in chicken'. BMC Research Notes, 2 [Details]
(2009) 'Evidence of balanced diversity at the chicken interleukin 4 receptor alpha chain locus'
Downing T, et al. (2009) 'Evidence of balanced diversity at the chicken interleukin 4 receptor alpha chain locus'. BMC Evolutionary Biology, 9 (1) [Details]
(2009) 'Contrasting evolution of diversity at two disease-associated chicken genes'
Downing T, et al. (2009) 'Contrasting evolution of diversity at two disease-associated chicken genes'. Immunogenetics, 61 (4):303-314 [Details]
(2009) 'The avian toll-like-receptor pathway - subtle differences amidst general conformity'
Cormican P, Lloyd AT, Downing T, et al. (2009) 'The avian toll-like-receptor pathway - subtle differences amidst general conformity'. Developmental And Comparative Immunology, 33 (9):967-973 [Details]

Book Chapters

  Year Publication
(2013) 'Genome-wide variant discovery using sequence assembly, mapping and population-wide analysis'
Coughlan S, Barreira S, Soeighe C, Downing T (2013) 'Genome-wide variant discovery using sequence assembly, mapping and population-wide analysis' In: Bioinformatics and data analysis in microbiology. 1: 1. [Details]

Conference Publications

  Year Publication
(2006) VIBE
Tim Downing et al (2006) A genomic approach to detecting selection in the chicken genome VIBE University College Dublin, Ireland, [Details]
(2006) International Chicken Meeting
Tim Downing et al (2006) A genomic approach to detecting selection in the chicken genome International Chicken Meeting Cold Spring Habor, NY, USA, [Details]
(2007) Bovine and Avian Immunogenetics
Tim Downing et al (2007) The population genetics of two disease-associated chicken genes Bovine and Avian Immunogenetics [Details]
(2007) International Chicken Meeting
Tim Downing et al (2007) A population genetic examination of two disease-associated chicken genes International Chicken Meeting Barcelona, Spain, [Details]
(2010) MEEGID
Tim Downing et al (2010) Population genomic variation in clinical Leishmania donovani strains MEEGID Amsterdam, Netherlands, [Details]
(2010) British Society for Parasitology
Tim Downing et al (2010) Patterns of population genomic variation in Leishmania donovani British Society for Parasitology Cardiff, UK, [Details]
(2010) Neglected Protozoan Diseases
Tim Downing et al (2010) The dynamics of population genomic variation in Leishmania donovani clinical strains Neglected Protozoan Diseases Paris, France, [Details]
(2011) Phylogenetics
Tim Downing et al (2011) Genome sequencing of Leishmania donovani clinical lines reveals dynamic phylogenetic variation Phylogenetics Cambridge University, UK, [Details]
(2011) European Society of Evolutionary Biology
Tim Downing et al (2011) The evolutionary and epidemiological genomics of drug resistance in clinical Leishmania donovani strains European Society of Evolutionary Biology Tubingen, Germany, [Details]
(2012) Population Genetics group 46
Tim Downing et al (2012) The population genomics of drug resistance in parasites causing visceral leishmaniasis Population Genetics group 46 Glasgow, UK, [Details]
(2012) British Society for Parasitology
Tim Downing et al (2012) Using population structure to explore drug resistance genetics in the Leishmania donovani complex British Society for Parasitology Glasgow, UK, [Details]
(2012) VIBE
Tim Downing et al (2012) Ancient and recent origins of drug resistance in Leishmania parasites VIBE Dublin, Ireland, [Details]
(2012) Population Genetics group 45
Tim Downing et al (2012) The evolutionary epidemiology of Leishmania parasites in the Indian subcontinent Population Genetics group 45 Nottingham, UK, [Details]
(2012) Cambridge Evolutionary Genetics Meeting
Tim Downing et al (2012) Genomics insights into the phylogeographic evolutionary history of the global leishmaniasis epidemic Cambridge Evolutionary Genetics Meeting Cambridge University, UK, [Details]
(2013) NUIG School of Maths Research Day
Tim Downing et al (2013) Extensive variation in DNA diversity patterns in chromosomes of parasite samples from patients NUIG School of Maths Research Day NUI Galway, Ireland, [Details]

Presentation

  Year Publication
(2012) Methods for discovering mutations and ancient signatures of hybridisation in DNA.
Tim Downing et al (2012) Methods for discovering mutations and ancient signatures of hybridisation in DNA. Mathematics Applications Consortium for Science & Industry, University of Limerick, Ireland: Presentation [Details]

Employment

  Employer Position From / To
Wellcome Trust Sanger Institute Postdoctoral fellow 05-OCT-09 / 02-MAR-12

Education

  Year Institution Qualification Subject
2013 NUI Galway Postgraduate certificate in Teaching and learning Education
2004 Trinity College Dublin BACHELOR OF SCIENCE Human genetics
2005 Dublin Ciy University Msc Bioinformatics
2009 Trinity College Dublin PhD Population genetics

Languages

  Language
French

Teaching Interests

Bioinformatics
Genomics
Pathogen evolution
Population genetics
Adaptation

Modules Taught

  Term/Year Module Title Module Code Subject / Desc
Introduction to genomics MA570 Genomic data analysis
2012 Introduction to programming for biologists Perl for biotechnology
2013 Mathematical molecular biology II Mathematical population genomics
2013 Introduction to bioinformatics Computationa molecular biology