Daniel Barker
Contact details
- Tel: 0131 651 7812
- Email: Daniel.Barker@ed.ac.uk
Address
- Street
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Rm. GA55, Ashworth building
- City
- Post code
Background
Reader.
2020+. Academic Lead for Public Engagement in the School of Biological Sciences.
2019-2021. MSc Bioinformatics Programme Director.
2018+. Reader in Bioinformatics, University of Edinburgh.
2016-2018. Lecturer in Bioinformatics, University of Edinburgh.
2010-2015. Lecturer in Biology, University of St Andrews.
2005-2010. Research Councils UK Academic Fellow in Evolutionary and Functional Genomics, University of St Andrews.
2002-2005. Research Fellow, University of Reading.
2001-2002. Developer, Ensembl project, Wellcome Trust Sanger Institute.
1999-2001. Software Engineer and Software Engineer II, Analog Devices Inc.
Postgraduate teaching
Statistics and Data Analysis (PGBI11003). Lecturer.
Comparative and Evolutionary Genomics (PGBI11115). Course Organiser.
Open to PhD supervision enquiries?
Yes
Current PhD students supervised
Joe Guscott, Edward Martin.
Research summary
Bioinformatics education, phylogeny, comparative genomics, philosophy of science.
4273pi - Software for Teaching and Learning Computational Biology. https://4273pi.org
LVB - Reconstructing Evolution with Parsimony and Simulated Annealing. https://lvb.bio.ed.ac.uk
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Genomic insights into the biosynthesis and physiology of the cyanobacterial neurotoxin 3-N-methyl-2,3-diaminopropanoic acid (BMAA)
(14 pages)
In:
Phytochemistry, vol. 200
DOI: https://doi.org/10.1016/j.phytochem.2022.113198
Research output: Contribution to Journal › Article (Published) -
Bringing bioinformatics to schools with the 4273pi project
(12 pages)
In:
PLoS Computational Biology, vol. 18
DOI: https://doi.org/10.1371/journal.pcbi.1009705
Research output: Contribution to Journal › Article (Published) -
Genomic insights into the biosynthesis and physiology of the cyanobacterial neurotoxin 2,4-diaminobutanoic acid (2,4-DAB)
(14 pages)
In:
Phytochemistry, vol. 192
DOI: https://doi.org/10.1016/j.phytochem.2021.112953
Research output: Contribution to Journal › Article (Published) -
Using sound to understand protein sequence data: New sonification algorithms for protein sequences and multiple sequence alignments
(39 pages)
In:
BMC Bioinformatics, vol. 22
DOI: https://doi.org/10.1186/s12859-021-04362-7
Research output: Contribution to Journal › Article (Published) -
DNA sonification for public engagement in bioinformatics
(4 pages)
In:
BMC Research Notes, vol. 14
DOI: https://doi.org/10.1186/s13104-021-05685-7
Research output: Contribution to Journal › Article (Published) -
Bringing bioinformatics to schools
(2 pages)
In:
Hello World, pp. 30-31
Research output: Contribution to Journal › Article (Published) -
Design, delivery and evaluation of a bioinformatics education workshop for 13-16-year-olds
(11 pages)
In:
Journal of Biological Education, vol. 56, pp. 570-580
DOI: https://doi.org/10.1080/00219266.2020.1858932
Research output: Contribution to Journal › Article (Published) -
Annealing party
(2 pages)
DOI: https://doi.org/10.1007/978-3-030-33471-0
Research output: › Chapter (Published) -
Comparison of the protein-coding genomes of three deep-sea, sulfur-oxidising bacteria: “Candidatus Ruthia magnifica”, “Candidatus Vesicomyosocius okutanii” and Thiomicrospira crunogena
(6 pages)
In:
BMC Research Notes, vol. 10
DOI: https://doi.org/10.1186/s13104-017-2598-5
Research output: Contribution to Journal › Article (E-pub ahead of print) -
Xenolog classification
(10 pages)
In:
Bioinformatics, vol. 33, pp. 640-649
DOI: https://doi.org/10.1093/bioinformatics/btw686
Research output: Contribution to Journal › Article (Published) -
Cluster analysis of p53 binding site sequences reveals subsets with different functions
(11 pages)
In:
Cancer Informatics, pp. 199-209
DOI: https://doi.org/10.4137/CIN.S39968
Research output: Contribution to Journal › Article (Published) -
On simulated annealing phase transitions in phylogeny reconstruction
In:
Molecular phylogenetics and evolution, vol. 101, pp. 46–55
DOI: https://doi.org/10.1016/j.ympev.2016.05.001
Research output: Contribution to Journal › Article (Published) -
Bringing computational science to the public
(9 pages)
In:
SpringerPlus, vol. 5
DOI: https://doi.org/10.1186/s40064-016-1856-7
Research output: Contribution to Journal › Article (Published) -
University-level practical activities in bioinformatics benefit voluntary groups of pupils in the last 2 years of school
In:
International journal of STEM education, vol. 2
DOI: https://doi.org/10.1186/s40594-015-0030-z
Research output: Contribution to Journal › Article (Published) -
A comparison of the protein-coding genomes of two green sulphur bacteria, Chlorobium tepidum TLS and Pelodictyon phaeoclathratiforme BU-1
In:
BMC Research Notes, vol. 8
DOI: https://doi.org/10.1186/s13104-015-1535-8
Research output: Contribution to Journal › Article (Published) -
Comparison of the protein-coding gene content of Chlamydia trachomatis and Protochlamydia amoebophila using a Raspberry Pi computer
In:
BMC Research Notes, vol. 8
DOI: https://doi.org/10.1186/s13104-015-1476-2
Research output: Contribution to Journal › Article (Published) -
Seeing the wood for the trees: philosophical aspects of classical, Bayesian and likelihood approaches in statistical inference and some implications for phylogenetic analysis
(21 pages)
In:
Biology and Philosophy, vol. 30, pp. 505-525
DOI: https://doi.org/10.1007/s10539-014-9455-x
Research output: Contribution to Journal › Article (Published) -
One origin for metallo-β-lactamase activity, or two? An investigation assessing a diverse set of reconstructed ancestral sequences based on a sample of phylogenetic trees
In:
Journal of molecular evolution, vol. 79, pp. 117-129
DOI: https://doi.org/10.1007/s00239-014-9639-7
Research output: Contribution to Journal › Article (E-pub ahead of print) -
4273π: bioinformatics education on low cost ARM hardware
(6 pages)
In:
BMC Bioinformatics, vol. 14
DOI: https://doi.org/10.1186/1471-2105-14-243
Research output: Contribution to Journal › Article (Published) -
Models incorporating chromatin modification data identify functionally important p53 binding sites
(12 pages)
In:
Nucleic Acids Research, vol. 41, pp. 5582-5593
DOI: https://doi.org/10.1093/nar/gkt260
Research output: Contribution to Journal › Article (Published)