Publications
1. Improving the Performance of CGPANN for Breast Cancer Diagnosis using Crossover and Radial Basis Functions, Timmy Manning, Paul Walsh The European Conference on Evolutionary Computation, Machine Learning and Data Mining in Computational Biology
2. Metagenomics and novel gene discovery: Promise and potential for novel therapeutics. Culligan EP, Sleator RD, Marchesi JR, Hill C. Virulence. 2013 Apr 1;5(3). [Epub ahead of print] Review. PMID:24317337[PubMed - as supplied by publisher]
3. Accelerating in silico research with workflows: A lesson in Simplicity. Walsh P, Carroll J, Sleator RD. Comput Biol Med. 2013 Dec 1;43(12):2028-35. doi: 10.1016/j.compbiomed.2013.09.011. Epub 2013 Sep 25. PMID:24290918[PubMed - in process]
4. Genomic investigation into strain heterogeneity and pathogenic potential of the emerging gastrointestinal pathogen Campylobacter ureolyticus. Bullman S, Lucid A, Corcoran D, Sleator RD, Lucey B. PLoS One. 2013 Aug 30;8(8):e71515. doi: 10.1371/journal.pone.0071515. PMID:24023611[PubMed - in process] Free PMC Article
5. Digitizing humanity. Sleator RD, O'Driscoll A. Artif DNA PNA XNA. 2013 Apr-Jun;4(2):37-8. PMID:23912716[PubMed - in process]
6. 'Big data', Hadoop and cloud computing in genomics. O'Driscoll A, Daugelaite J, Sleator RD. J Biomed Inform. 2013 Oct;46(5):774-81. doi: 10.1016/j.jbi.2013.07.001. Epub 2013 Jul 18. PMID:23872175[PubMed - in process]
7. Improved detection of bacterial pathogens in patients presenting with gastroenteritis by use of the EntericBio real-time Gastro Panel I assay. Koziel M, Kiely R, Blake L, O'Callaghan I, Corcoran GD, Lucey B, Sleator RD. J Clin Microbiol. 2013 Aug;51(8):2679-85. doi: 10.1128/JCM.00809-13. Epub 2013 Jun 12. PMID:23761157[PubMed - in process]
8. A beginner's guide to phylogenetics. Sleator RD. Microb Ecol. 2013 Jul;66(1):1-4. doi: 10.1007/s00248-013-0236-x. Epub 2013 Apr 28. PMID:23624570[PubMed - in process]
9. Codon optimisation to improve expression of a Mycobacterium avium ssp. paratuberculosis-specific membrane-associated antigen by Lactobacillus salivarius. Johnston C, Douarre PE, Soulimane T, Pletzer D, Weingart H, MacSharry J, Coffey A, Sleator RD, O'Mahony J. Pathog Dis. 2013 Jun;68(1):27-38. doi: 10.1111/2049-632X.12040. Epub 2013 Apr 18. PMID:23620276[PubMed - in process]
10. Synthetic DNA: the next generation of big data storage. O' Driscoll A, Sleator RD. Bioengineered. 2013 May-Jun;4(3):123-5. doi: 10.4161/bioe.24296. Epub 2013 Mar 20. PMID:23514938[PubMed - in process] Free PMC Article
11. A single point mutation in the listerial betL σ (A) -dependent promoter leads to improved osmo- and chill-tolerance and a morphological shift at elevated osmolarity. Hoffmann RF, McLernon S, Feeney A, Hill C, Sleator RD. Bioengineered. 2013 Mar 11;4(6). [Epub ahead of print]PMID:23478432[PubMed - as supplied by publisher] Free Article
12. Synthetic ribosomes: making molecules that make molecules. Sleator RD. Bioengineered. 2013 Mar-Apr;4(2):63-4. doi: 10.4161/bioe.23640. Epub 2013 Jan 16. No abstract available. PMID:23324614[PubMed - indexed for MEDLINE] Free PMC Article
13. Naturally selecting solutions: the use of genetic algorithms in bioinformatics. Manning T, Sleator RD, Walsh P. Bioengineered. 2013 Sep-Oct;4(5):266-78. doi: 10.4161/bioe.23041. Epub 2012 Dec 6. PMID:23222169[PubMed - in process]
14. Validation of the EntericBio Panel II multiplex polymerase chain reaction system for detection of Campylobacter spp., Salmonella spp., Shigella spp., and verotoxigenic E. coli for use in a clinical diagnostic setting. Koziel M, Corcoran D, O'Callaghan I, Sleator RD, Lucey B. Diagn Microbiol Infect Dis. 2013 Jan;75(1):46-9. doi: 10.1016/j.diagmicrobio.2012.09.007. Epub 2012 Nov 20.PMID:23182078[PubMed - indexed for MEDLINE]
15. The synthetic biology future. Sleator RD. Bioengineered. 2014 Feb 21;5(2). PMID:24561910
16. Functional environmental screening of a metagenomic library identifies stlA; a unique salt tolerance locus from the human gut microbiome. Culligan EP, Sleator RD, Marchesi JR, Hill C. PLoS One. 2013 Dec 12;8(12):e82985. doi: 10.1371/journal.pone.0082985. eCollection 2013. PMID:24349412
17. Biologically inspired intelligent decision making: A commentary on the use of artificial neural networks in bioinformatics. Manning T, Sleator RD, Walsh P. Bioengineered. 2013 Dec 16;5(2). [Epub ahead of print] Review. PMID:24335433
18. HBLAST: Parallelised Sequence Similarity A Hadoop MapReducable Basic Local Alignment Search Tool.
Aisling O’ Driscoll, Vladislav Belogrudov, John Carroll, Kai Kropp, Paul Walsh, Peter Ghazal, Roy D. Sleator. Journal of Biomedical Informatics. 01/2015; DOI: 10.1016/j.jbi.2015.01.008
19. Draft Genome Sequence of an Enterococcus faecalis Strain Isolated from a Neonatal Blood Sepsis Patient.
K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, C Smith, P Dickinson, A O'Driscoll, K Templeton, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00907-14
20. Draft Genome Sequence of a Staphylococcus warneri Strain Isolated from a Preterm Neonate Blood Sepsis Patient at the Royal Infirmary, Edinburgh, Scotland. K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, C Smith, P Dickinson, A O'Driscoll, K Templeton, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00877-14
21. Draft Genome Sequence of a Staphylococcus aureus Isolate Taken from the Blood of a Preterm Neonatal Blood Sepsis Patient.
K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, K Templeton, C Smith, P Dickinson, A O'Driscoll, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00906-14
22. Draft Genome Sequence of a Streptococcus agalactiae Strain Isolated from a Preterm Neonate Blood Sepsis Patient at the Royal Infirmary, Edinburgh, Scotland. K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, C Smith, P Dickinson, A O'Driscoll, K Templeton, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00875-14
23. Draft Genome Sequence of a Serratia marcescens Strain Isolated from a Preterm Neonatal Blood Sepsis Patient at the Royal Infirmary, Edinburgh, Scotland, United Kingdom. K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, C Smith, P Dickinson, A O'Driscoll, K Templeton, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00908-14
24. Draft Genome Sequence of a Pantoea sp. Isolated from a Preterm Neonatal Blood Sepsis Patient. K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, K Templeton, C Smith, P Dickinson, A O'Driscoll, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00904-14
2. Metagenomics and novel gene discovery: Promise and potential for novel therapeutics. Culligan EP, Sleator RD, Marchesi JR, Hill C. Virulence. 2013 Apr 1;5(3). [Epub ahead of print] Review. PMID:24317337[PubMed - as supplied by publisher]
3. Accelerating in silico research with workflows: A lesson in Simplicity. Walsh P, Carroll J, Sleator RD. Comput Biol Med. 2013 Dec 1;43(12):2028-35. doi: 10.1016/j.compbiomed.2013.09.011. Epub 2013 Sep 25. PMID:24290918[PubMed - in process]
4. Genomic investigation into strain heterogeneity and pathogenic potential of the emerging gastrointestinal pathogen Campylobacter ureolyticus. Bullman S, Lucid A, Corcoran D, Sleator RD, Lucey B. PLoS One. 2013 Aug 30;8(8):e71515. doi: 10.1371/journal.pone.0071515. PMID:24023611[PubMed - in process] Free PMC Article
5. Digitizing humanity. Sleator RD, O'Driscoll A. Artif DNA PNA XNA. 2013 Apr-Jun;4(2):37-8. PMID:23912716[PubMed - in process]
6. 'Big data', Hadoop and cloud computing in genomics. O'Driscoll A, Daugelaite J, Sleator RD. J Biomed Inform. 2013 Oct;46(5):774-81. doi: 10.1016/j.jbi.2013.07.001. Epub 2013 Jul 18. PMID:23872175[PubMed - in process]
7. Improved detection of bacterial pathogens in patients presenting with gastroenteritis by use of the EntericBio real-time Gastro Panel I assay. Koziel M, Kiely R, Blake L, O'Callaghan I, Corcoran GD, Lucey B, Sleator RD. J Clin Microbiol. 2013 Aug;51(8):2679-85. doi: 10.1128/JCM.00809-13. Epub 2013 Jun 12. PMID:23761157[PubMed - in process]
8. A beginner's guide to phylogenetics. Sleator RD. Microb Ecol. 2013 Jul;66(1):1-4. doi: 10.1007/s00248-013-0236-x. Epub 2013 Apr 28. PMID:23624570[PubMed - in process]
9. Codon optimisation to improve expression of a Mycobacterium avium ssp. paratuberculosis-specific membrane-associated antigen by Lactobacillus salivarius. Johnston C, Douarre PE, Soulimane T, Pletzer D, Weingart H, MacSharry J, Coffey A, Sleator RD, O'Mahony J. Pathog Dis. 2013 Jun;68(1):27-38. doi: 10.1111/2049-632X.12040. Epub 2013 Apr 18. PMID:23620276[PubMed - in process]
10. Synthetic DNA: the next generation of big data storage. O' Driscoll A, Sleator RD. Bioengineered. 2013 May-Jun;4(3):123-5. doi: 10.4161/bioe.24296. Epub 2013 Mar 20. PMID:23514938[PubMed - in process] Free PMC Article
11. A single point mutation in the listerial betL σ (A) -dependent promoter leads to improved osmo- and chill-tolerance and a morphological shift at elevated osmolarity. Hoffmann RF, McLernon S, Feeney A, Hill C, Sleator RD. Bioengineered. 2013 Mar 11;4(6). [Epub ahead of print]PMID:23478432[PubMed - as supplied by publisher] Free Article
12. Synthetic ribosomes: making molecules that make molecules. Sleator RD. Bioengineered. 2013 Mar-Apr;4(2):63-4. doi: 10.4161/bioe.23640. Epub 2013 Jan 16. No abstract available. PMID:23324614[PubMed - indexed for MEDLINE] Free PMC Article
13. Naturally selecting solutions: the use of genetic algorithms in bioinformatics. Manning T, Sleator RD, Walsh P. Bioengineered. 2013 Sep-Oct;4(5):266-78. doi: 10.4161/bioe.23041. Epub 2012 Dec 6. PMID:23222169[PubMed - in process]
14. Validation of the EntericBio Panel II multiplex polymerase chain reaction system for detection of Campylobacter spp., Salmonella spp., Shigella spp., and verotoxigenic E. coli for use in a clinical diagnostic setting. Koziel M, Corcoran D, O'Callaghan I, Sleator RD, Lucey B. Diagn Microbiol Infect Dis. 2013 Jan;75(1):46-9. doi: 10.1016/j.diagmicrobio.2012.09.007. Epub 2012 Nov 20.PMID:23182078[PubMed - indexed for MEDLINE]
15. The synthetic biology future. Sleator RD. Bioengineered. 2014 Feb 21;5(2). PMID:24561910
16. Functional environmental screening of a metagenomic library identifies stlA; a unique salt tolerance locus from the human gut microbiome. Culligan EP, Sleator RD, Marchesi JR, Hill C. PLoS One. 2013 Dec 12;8(12):e82985. doi: 10.1371/journal.pone.0082985. eCollection 2013. PMID:24349412
17. Biologically inspired intelligent decision making: A commentary on the use of artificial neural networks in bioinformatics. Manning T, Sleator RD, Walsh P. Bioengineered. 2013 Dec 16;5(2). [Epub ahead of print] Review. PMID:24335433
18. HBLAST: Parallelised Sequence Similarity A Hadoop MapReducable Basic Local Alignment Search Tool.
Aisling O’ Driscoll, Vladislav Belogrudov, John Carroll, Kai Kropp, Paul Walsh, Peter Ghazal, Roy D. Sleator. Journal of Biomedical Informatics. 01/2015; DOI: 10.1016/j.jbi.2015.01.008
19. Draft Genome Sequence of an Enterococcus faecalis Strain Isolated from a Neonatal Blood Sepsis Patient.
K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, C Smith, P Dickinson, A O'Driscoll, K Templeton, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00907-14
20. Draft Genome Sequence of a Staphylococcus warneri Strain Isolated from a Preterm Neonate Blood Sepsis Patient at the Royal Infirmary, Edinburgh, Scotland. K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, C Smith, P Dickinson, A O'Driscoll, K Templeton, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00877-14
21. Draft Genome Sequence of a Staphylococcus aureus Isolate Taken from the Blood of a Preterm Neonatal Blood Sepsis Patient.
K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, K Templeton, C Smith, P Dickinson, A O'Driscoll, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00906-14
22. Draft Genome Sequence of a Streptococcus agalactiae Strain Isolated from a Preterm Neonate Blood Sepsis Patient at the Royal Infirmary, Edinburgh, Scotland. K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, C Smith, P Dickinson, A O'Driscoll, K Templeton, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00875-14
23. Draft Genome Sequence of a Serratia marcescens Strain Isolated from a Preterm Neonatal Blood Sepsis Patient at the Royal Infirmary, Edinburgh, Scotland, United Kingdom. K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, C Smith, P Dickinson, A O'Driscoll, K Templeton, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00908-14
24. Draft Genome Sequence of a Pantoea sp. Isolated from a Preterm Neonatal Blood Sepsis Patient. K A Kropp, A Lucid, J Carroll, V Belgrudov, P Walsh, B Kelly, K Templeton, C Smith, P Dickinson, A O'Driscoll, P Ghazal, R D Sleator. Genome Announcements 09/2014; 2(5). DOI: 10.1128/genomeA.00904-14
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This project is partly funded by the European Commission
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