Paul ONeill | Biosciences | University of Exeter

Paul O'Neill

Experimental Officer- Exeter Sequencing Service

P.A.ONeill@exeter.ac.uk

6720

Geoffrey Pope 313

Geoffrey Pope Building, University of Exeter , Stocker Road, Exeter, EX4 4QD, UK

Overview

Originally from a computer scientist background I turned bioinformatician in 2010. I now work for the Exeter Sequencing Service where I support the computation requirements of the service to QC, perform primary analysis, and deliver sequencing data to researchers.

Qualifications

2011 MSc Bioinformatics, University of Exeter, UK

1988 BSc Electronic Engineering and Computer Science, Aston University, UK

Research

Research interests

Publications

Zerihun Yemataw, Sadik Muzemil, Daniel Ambachew, Leena Tripathi, Kassahun Tesfaye, Alemayheu Chala, Audrey Farbos, Paul O’Neill, Karen Moore, Murray Grant, David J. Studholme (2018) Genome sequence data from 17 accessions of Ensete ventricosum , a staple food crop for millions in Ethiopia, Data in Brief 18, p. 285-293, Elsevier Inc., url, doi:10.1016/j.dib.2018.03.026

Philip J Mitchelmore, Joanna Randall, Matthew J Bull, Karen A Moore, Paul A O’Neill, Konrad Paszkiewicz, Eshwar Mahenthiralingam, Chris J Scotton, Christopher D Sheldon, Nicholas J Withers, Alan R Brown (2017) Molecular epidemiology of Pseudomonas aeruginosa in an unsegregated bronchiectasis cohort sharing hospital facilities with a cystic fibrosis cohort, Thorax, p. thoraxjnl-2016-209889, pubmed, doi:10.1136/thoraxjnl-2016-209889

Lourdes De La Mata Saez, Alistair R. McCracken, Louise R. Cooke, Paul O'Neill, Murray Grant, David J. Studholme (2015) Draft genome sequences of seven isolates of Phytophthora ramorum EU2 from Northern Ireland, Genomics Data 6, p. 191-192, Elsevier Inc., url, doi:10.1016/j.gdata.2015.09.009

T. Laver, J. Harrison, P.A. O’Neill, K. Moore, A. Farbos, K. Paszkiewicz, D.J. Studholme (2015) Assessing the performance of the Oxford Nanopore Technologies MinION, Biomolecular Detection and Quantification 3, p. 1-8, pubmed central

Christine Sambles, Alexandra Schlenzig, Paul O'Neill, Murray Grant, David J. Studholme (2015) Draft genome sequences of Phytophthora kernoviae and Phytophthora ramorum lineage EU2 from Scotland, Genomics Data 6, p. 193-194, Elsevier Inc., url, doi:10.1016/j.gdata.2015.09.010

Konrad H Paszkiewicz, Audrey Farbos, Paul O'Neill, Karen Moore (2014) Quality control on the frontier., Frontiers in genetics 5, p. 157, Frontiers, url

Publications

Journal articles

Child HT, O'Neill PA, Moore K, Rowe W, Denise H, Bass D, Wade MJ, Loose M, Paterson S, van Aerle R, et al (2023). Optimised protocol for monitoring SARS-CoV-2 in wastewater using reverse complement PCR-based whole-genome sequencing. PLoS One, 18(4). Abstract. Author URL.

Jenkins CH, Scott AE, O'Neill PA, Norville IH, Prior JL, Ireland PM (2023). The Arabinose 5-Phosphate Isomerase KdsD is Required for Virulence in Burkholderia pseudomallei. J Bacteriol, 205(8). Abstract. Author URL.

Wheildon G, Smith AR, Soanes D, Southern F, Devall M, Moore K, O'Neill P, Troakes C, Lunnon K (2022). DNA methylation of mitochondrial DNA shows variation in human brain. Alzheimer's and Dementia, 18(S4). Abstract.

Leung SK, Jeffries AR, Castanho I, Jordan BT, Moore K, Davies JP, Dempster EL, Bray NJ, O’Neill P, Tseng E, et al (2021). Full-length transcript sequencing of human and mouse cerebral cortex identifies widespread isoform diversity and alternative splicing. Cell Reports, 37(7), 110022-110022.

Saud HA, O'Neill PA, Ono Y, Verbruggen B, Van Aerle R, Kim J, Lee J-S, Ring BC, Kudoh T (2021). Molecular mechanisms of embryonic tail development in the self-fertilizing mangrove killifish Kryptolebias marmoratus. Development, 148(24). Abstract. Author URL.

Castanho I, Murray TK, Hannon E, Jeffries A, Walker E, Laing E, Baulf H, Harvey J, Bradshaw L, Randall A, et al (2020). Transcriptional Signatures of Tau and Amyloid Neuropathology. Cell Rep, 30(6), 2040-2054.e5. Abstract. Author URL.

Hemsley CM, O'Neill PA, Essex-Lopresti A, Norville IH, Atkins TP, Titball RW (2019). Extensive genome analysis of Coxiella burnetii reveals limited evolution within genomic groups. BMC Genomics, 20(1). Abstract. Author URL.

Dickinson AW, Power A, Hansen MG, Brandt KK, Piliposian G, Appleby P, O'Neill PA, Jones RT, Sierocinski P, Koskella B, et al (2019). Heavy metal pollution and co-selection for antibiotic resistance: a microbial palaeontology approach. Environment International, 132 Abstract.

Yemataw Z, Muzemil S, Ambachew D, Tripathi L, Tesfaye K, Chala A, Farbos A, O'Neill P, Moore K, Grant M, et al (2018). Genome sequence data from 17 accessions of Ensete ventricosum, a staple food crop for millions in Ethiopia. Data in Brief, 18, 285-293. Abstract.

Morcrette H, Morgan MS, Farbos A, O'Neill P, Moore K, Titball RW, Studholme DJ (2018). Genome sequence of Staphylococcus aureus Ex1, isolated from a patient with spinal osteomyelitis. Genome Announcements, 6(26). Abstract.

Smith A, Kaczmar A, Bamford RA, Smith C, Frustaci S, Kovacs-Simon A, O'Neill P, Moore K, Paszkiewicz K, Titball RW, et al (2018). The Culture Environment Influences Both Gene Regulation and Phenotypic Heterogeneity in <i>Escherichia coli</i>. FRONTIERS IN MICROBIOLOGY, 9 Author URL.

Turner J, O'Neill P, Grant M, Mumford RA, Thwaites R, Studholme DJ (2017). Genome sequences of 12 isolates of the EU1 lineage of Phytophthora ramorum , a fungus-like pathogen that causes extensive damage and mortality to a wide range of trees and other plants. Genomics Data, 12, 17-21.

Mitchelmore PJ, Randall J, Bull MJ, Moore KA, O'Neill PA, Paszkiewicz K, Mahenthiralingam E, Scotton CJ, Sheldon CD, Withers NJ, et al (2017). Molecular epidemiology of Pseudomonas aeruginosa in an unsegregated bronchiectasis cohort sharing hospital facilities with a cystic fibrosis cohort. Thorax Abstract. Author URL.

Laver T, Harrison J, O'Neill PA, Moore K, Farbos A, Paszkiewicz K, Studholme DJ (2015). Assessing the performance of the Oxford Nanopore Technologies MinION. Biomolecular Detection and Quantification, 3, 1-8. Abstract.

Sambles C, Schlenzig A, O'Neill P, Grant M, Studholme DJ (2015). Draft genome sequences of Phytophthora kernoviae and Phytophthora ramorum lineage EU2 from Scotland. Genomics Data, 6, 193-194.

Mata Saez LDL, McCracken AR, Cooke LR, O'Neill P, Grant M, Studholme DJ (2015). Draft genome sequences of seven isolates of Phytophthora ramorum EU2 from Northern Ireland. Genomics Data, 6, 191-192. Abstract.

Paszkiewicz KH, Farbos A, O'Neill P, Moore K (2014). Quality control on the frontier. Front Genet, 5 Abstract. Author URL.

Quinn L, O'Neill PA, Harrison J, Paskiewicz KH, Mccracken AR, Cooke LR, Grant MR, Studholme DJ (2013). Genome-wide sequencing of Phytophthora lateralis reveals genetic variation among isolates from Lawson cypress (Chamaecyparis lawsoniana) in Northern Ireland. FEMS Microbiology Letters, 344(2), 179-185. Abstract.

Quinn L, O'Neill PA, Harrison J, Paskiewicz KH, McCracken AR, Cooke LR, Grant MR, Studholme DJ (2013). Genome-wide sequencing of Phytophthora lateralis reveals genetic variation among isolates from Lawson cypress (Chamaecyparis lawsoniana) in Northern Ireland. FEMS Microbiol Lett, 344(2), 179-185. Abstract. Author URL.

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