User profiles for T. D. Otto

Thomas D. Otto

University of Glasgow
Verified email at glasgow.ac.uk
Cited by 18830

[PDF][PDF] Kinetoplastid phylogenomics reveals the evolutionary innovations associated with the origins of parasitism

AP Jackson, TD Otto, M Aslett, SD Armstrong… - Current Biology, 2016 - cell.com
The evolution of parasitism is a recurrent event in the history of life and a core problem in
evolutionary biology. Trypanosomatids are important parasites and include the human …

[HTML][HTML] A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers

MA Quail, M Smith, P Coupland, TD Otto, SR Harris… - BMC genomics, 2012 - Springer
Background Next generation sequencing (NGS) technology has revolutionized genomic and
genetic research. The pace of change in this area is rapid with three major new sequencing …

[HTML][HTML] Circlator: automated circularization of genome assemblies using long sequencing reads

M Hunt, ND Silva, TD Otto, J Parkhill, JA Keane… - Genome biology, 2015 - Springer
The assembly of DNA sequence data is undergoing a renaissance thanks to emerging
technologies capable of producing reads tens of kilobases long. Assembling complete bacterial …

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

…, N Maillet, S Melnikov, D Naquin, Z Ning, TD Otto… - …, 2013 - academic.oup.com
Background The process of generating raw genome sequence data continues to become
cheaper, faster, and more accurate. However, assembly of such data into high-quality, finished …

Uncovering the essential genes of the human malaria parasite Plasmodium falciparum by saturation mutagenesis

M Zhang, C Wang, TD Otto, J Oberstaller, X Liao… - Science, 2018 - science.org
INTRODUCTION Malaria remains a devastating global parasitic disease, with the majority
of malaria deaths caused by the highly virulent Plasmodium falciparum. The extreme AT-bias …

Distinct synovial tissue macrophage subsets regulate inflammation and remission in rheumatoid arthritis

…, CD Buckley, E Gremese, IB McInnes, TD Otto… - Nature medicine, 2020 - nature.com
Immune-regulatory mechanisms of drug-free remission in rheumatoid arthritis (RA) are
unknown. We hypothesized that synovial tissue macrophages (STM), which persist in remission, …

ABACAS: algorithm-based automatic contiguation of assembled sequences

S Assefa, TM Keane, TD Otto, C Newbold… - …, 2009 - academic.oup.com
Due to the availability of new sequencing technologies, we are now increasingly interested
in sequencing closely related strains of existing finished genomes. Recently a number of de …

Two Nonrecombining Sympatric Forms of the Human Malaria Parasite Plasmodium ovale Occur Globally

…, M Burke, R Lee, M Blaze, TD Otto… - The Journal of …, 2010 - academic.oup.com
Background . Malaria in humans is caused by apicomplexan parasites belonging to 5 species
of the genus Plasmodium. Infections with Plasmodium ovale are widely distributed but …

Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania

…, D Harris, Y Her, P Herzyk, H Imamura, TD Otto… - Genome …, 2011 - genome.cshlp.org
Leishmania parasites cause a spectrum of clinical pathology in humans ranging from
disfiguring cutaneous lesions to fatal visceral leishmaniasis. We have generated a reference …

[HTML][HTML] A Systematically Improved High Quality Genome and Transcriptome of the Human Blood Fluke Schistosoma mansoni

…, C Lloyd, J McQuillan, G Oliveira, TD Otto… - PLoS neglected …, 2012 - journals.plos.org
Schistosomiasis is one of the most prevalent parasitic diseases, affecting millions of people
in developing countries. Amongst the human-infective species, Schistosoma mansoni is also …