Thomas D. Otto

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Prof. Matthew BerrimanSchool of Infection and Immunity, University of GlasgowVerifisert e-postadresse på glasgow.ac.uk
Julian RaynerDirector, Cambridge Institute for Medical Research, University of CambridgeVerifisert e-postadresse på cam.ac.uk
arnab painProfessor, KAUST; Distinguished Professor, Hokkaido UniversityVerifisert e-postadresse på kaust.edu.sa
Martin HuntNuffield Department of Medicine, University of Oxford / European Bioinformatics InstituteVerifisert e-postadresse på ebi.ac.uk
Simon R. HarrisSenior Program Officer, Bill & Melinda Gates FoundationVerifisert e-postadresse på sanger.ac.uk
Wim DegravePesquisador Titular, Instituto Oswaldo Cruz, FiocruzVerifisert e-postadresse på fiocruz.br
Min ZhangUniversity of South FloridaVerifisert e-postadresse på usf.edu
Heinrich Magnus ManskeSenior Staff Scientist, Wellcome Trust Sanger Institute, Cambridge, UKVerifisert e-postadresse på sanger.ac.uk
Adam James ReidUniversity of CambridgeVerifisert e-postadresse på cam.ac.uk
Isheng Jason Tsai 蔡怡陞Academia SinicaVerifisert e-postadresse på gate.sinica.edu.tw
Andrew P JacksonReader in Parasitology, Institute of Infection and Global Health, University of LiverpoolVerifisert e-postadresse på liv.ac.uk
Manuel LlinásDistinguished Professor of Biochemistry & Molecular Biology, The Pennsylvania State UniversityVerifisert e-postadresse på psu.edu
James CottonSBOHVM, University of GlasgowVerifisert e-postadresse på glasgow.ac.uk
Thomas KeaneResearch and Services Group LeaderVerifisert e-postadresse på ebi.ac.uk
Guilherme OliveiraInstituto Tecnológico ValeVerifisert e-postadresse på itv.org
Dorothee AuerProfessor of Neuroimaging, University of NottinghamVerifisert e-postadresse på nottingham.ac.uk
Stephen BentleyWellcome Sanger InstituteVerifisert e-postadresse på sanger.ac.uk

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Thomas D. Otto

University of Glasgow

Verifisert e-postadresse på glasgow.ac.uk - Startside

Big Data Algorithms single cell


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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, TR Connor, A Bertoni, ... BMC genomics 13, 1-13, 2012	2847	2012
Circlator: automated circularization of genome assemblies using long sequencing reads M Hunt, ND Silva, TD Otto, J Parkhill, JA Keane, SR Harris Genome biology 16, 1-10, 2015	1028	2015
Uncovering the essential genes of the human malaria parasite Plasmodium falciparum by saturation mutagenesis M Zhang, C Wang, TD Otto, J Oberstaller, X Liao, SR Adapa, K Udenze, ... Science 360 (6388), eaap7847, 2018	909	2018
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species JOK Keith R Bradnam, Joseph N Fass, Anton Alexandrov GigaScience 2 (10), 2013	810	2013
Two Nonrecombining Sympatric Forms of the Human Malaria Parasite Plasmodium ovale Occur Globally CJ Sutherland, N Tanomsing, D Nolder, M Oguike, C Jennison, ... The Journal of infectious diseases 201 (10), 1544-1550, 2010	577	2010
Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania MB Rogers, JD Hilley, NJ Dickens, J Wilkes, PA Bates, DP Depledge, ... Genome research 21 (12), 2129-2142, 2011	552	2011
ABACAS: algorithm-based automatic contiguation of assembled sequences S Assefa, TM Keane, TD Otto, C Newbold, M Berriman Bioinformatics 25 (15), 1968-1969, 2009	534	2009
Distinct synovial tissue macrophage subsets regulate inflammation and remission in rheumatoid arthritis S Alivernini, L MacDonald, A Elmesmari, S Finlay, B Tolusso, MR Gigante, ... Nature medicine 26 (8), 1295-1306, 2020	527	2020
A Systematically Improved High Quality Genome and Transcriptome of the Human Blood Fluke Schistosoma mansoni AV Protasio, IJ Tsai, A Babbage, S Nichol, M Hunt, MA Aslett, N De Silva, ... PLoS neglected tropical diseases 6 (1), e1455, 2012	490	2012
A novel multiple-stage antimalarial agent that inhibits protein synthesis B Baragaña, I Hallyburton, MCS Lee, NR Norcross, R Grimaldi, TD Otto, ... Nature 522 (7556), 315-320, 2015	488	2015
A cascade of DNA-binding proteins for sexual commitment and development in Plasmodium A Sinha, KR Hughes, KK Modrzynska, TD Otto, C Pfander, NJ Dickens, ... Nature 507 (7491), 253-257, 2014	484	2014
New insights into the blood‐stage transcriptome of Plasmodium falciparum using RNA‐Seq TD Otto, D Wilinski, S Assefa, TM Keane, LR Sarry, U Böhme, J Lemieux, ... Molecular microbiology 76 (1), 12-24, 2010	472	2010
REAPR: a universal tool for genome assembly evaluation M Hunt, T Kikuchi, M Sanders, C Newbold, M Berriman, TD Otto Genome biology 14, 1-10, 2013	471	2013
Genomic Insights into the Origin of Parasitism in the Emerging Plant Pathogen Bursaphelenchus xylophilus T Kikuchi, JA Cotton, JJ Dalzell, K Hasegawa, N Kanzaki, P McVeigh, ... PLoS pathogens 7 (9), e1002219, 2011	453	2011
Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps IJ Tsai, TD Otto, M Berriman Genome biology 11, 1-9, 2010	364	2010
RATT: rapid annotation transfer tool TD Otto, GP Dillon, WS Degrave, M Berriman Nucleic acids research 39 (9), e57-e57, 2011	361	2011
A comprehensive evaluation of rodent malaria parasite genomes and gene expression TD Otto, U Böhme, AP Jackson, M Hunt, B Franke-Fayard, ... BMC biology 12, 1-18, 2014	319	2014
Optimizing Illumina next-generation sequencing library preparation for extremely AT-biased genomes SO Oyola, TD Otto, Y Gu, G Maslen, M Manske, S Campino, DJ Turner, ... BMC genomics 13, 1-12, 2012	272	2012
Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology TD Otto, M Sanders, M Berriman, C Newbold Bioinformatics 26 (14), 1704-1707, 2010	270	2010
Robust high-throughput prokaryote de novo assembly and improvement pipeline for Illumina data AJ Page, N De Silva, M Hunt, MA Quail, J Parkhill, SR Harris, TD Otto, ... Microbial genomics 2 (8), e000083, 2016	259	2016

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