Experienced Senior Bioinformatics Developer with a demonstrated history of working in the research industry. Skilled in Python, Database, Automation, Data Management and Bioinformatics. Strong engineering professional with a PostGraduate Diploma focused in Software Development from The Open University and academic background with a PhD in Bioinformatics from the ULB in Brussels then working at the EBI in the PDBe group in collaboration with CCPN developing a Protein Information Management System and working with genomics data, at the Sanger Institute and at the CRUK Cambridge Institute, to manage and automatise the flow of data.
Publications
Key publications:
The Protein Information Management System (PiMS): A generic tool for any structural biology research laboratory
Acta Crystallographica Section D: Biological Crystallography
2011 | Journal article
EID: 2-s2.0-79953737372
Contributors: Morris, C.; Pajon, A.; Griffiths, S.L.; Daniel, E.; Savitsky, M.; Lin, B.; Diprose, J.M.; Wilter Da Silva, A.; Pilicheva, K.; Troshin, P. et al.
PDBe: Protein Data Bank in Europe
Nucleic Acids Research
2009 | Journal article
DOI: 10.1093/nar/gkp916
EID:2-s2.0-75549089584
Contributors: Velankar, S.; Best, C.; Beuth, B.; Boutselakis, C.H.; Cobley, N.; Sousa da Silva, A.W.; Dimitropoulos, D.; Golovin, A.; Hirshberg, M.; John, M. et al.
Data management in structural genomics: an overview.
Methods in molecular biology (Clifton, N.J.)
2008 | Journal article
EID: 2-s2.0-49649093339
Contributors: Haquin, S.; Oeuillet, E.; Pajon, A.; Harris, M.; Jones, A.T.; van Tilbeurgh, H.; Markley, J.L.; Zolnai, Z.; Poupon, A.
SPINE bioinformatics and data-management aspects of high-throughput structural biology
Acta Crystallographica Section D: Biological Crystallography
2006 | Journal article
EID:2-s2.0-33749538422
Contributors: Albeck, S.; Alzari, P.; Andreini, C.; Banci, L.; Berry, I.M.; Bertini, I.; Cambillau, C.; Canard, B.; Carter, L.; Dym, O. et al.
A framework for scientific data modeling and automated software development
Bioinformatics
2005 | Journal article
EID: 2-s2.0-17444420842
Contributors: Fogh, R.H.; Boucher, W.; Vranken, W.F.; Pajon, A.; Stevens, T.J.; Bhat, T.N.; Westbrook, J.; Ionides, J.M.C.; Laue, E.D.
Design of a data model for developing laboratory information management and analysis systems for protein production
Proteins: Structure, Function and Genetics
2005 | Journal article
DOI: 10.1002/prot.20303
EID: 2-s2.0-19944428416
Contributors: Pajon, A.; Ionides, J.; Diprose, J.; Fillon, J.; Fogh, R.; Ashton, A.W.; Berman, H.; Boucher, W.; Cygler, M.; Deleury, E. et al.
HalX: An open-source LIMS (Laboratory Information Management System) for small- to large-scale laboratories
Acta Crystallographica Section D: Biological Crystallography
2005 | Journal article
EID: 2-s2.0-23844487144
Contributors: Prilusky, J.; Oueillet, E.; Ulryck, N.; Pajon, A.; Bernauer, J.; Krimm, I.; Quevillon-Cheruel, S.; Leulliot, N.; Graille, M.; Liger, D. et al.
The CCPN data model for NMR spectroscopy: Development of a software pipeline
Proteins: Structure, Function and Genetics
2005 | Journal article
DOI: 10.1002/prot.20449
EID: 2-s2.0-19444382397
Contributors: Vranken, W.F.; Boucher, W.; Stevens, T.J.; Fogh, R.H.; Pajon, A.; Llinas, M.; Ulrich, E.L.; Markley, J.L.; Ionides, J.; Laue, E.D.
E-MSD: An integrated data resource for bioinformatics
Nucleic Acids Research
2004 | Journal article
EID: 2-s2.0-9144231249
Contributors: Golovin, A.; Oldfield, T.J.; Tate, J.G.; Velankar, S.; Barton, G.J.; Boutselakis, H.; Dmitropoulos, D.; Fillon, J.; Hussain, A.; Ionides, J.M.C. et al.
PESCADOR: The PEptides in solution conformation database: Online resource
Journal of Biomolecular NMR
2002 | Journal article
EID: 2-s2.0-0035996707
Contributors: Pajon, A.; Vranken, W.F.; Jimenez, M.A.; Rico, M.; Wodak, S.J.
The active site of drosomycin, a small insect antifungal protein, delineated by comparison with the modeled structure of Rs-AFP2, a plant antifungal protein
Journal of Peptide Research
2000 | Journal article
EID: 2-s2.0-0033772647
Contributors: Landon, C.; Vovelle, F.; Sodano, P.; Pajon, A.
Teaching and Supervisions
Teaching:
2018/2019:
- Data Carpentry in R - Trainer
- Introduction to Command Line Linux - Trainer
- Managing your Research Data - Trainer
- Data Science in Python - Trainer
- Introduction to CRUK High Performance Computing - Trainer
2017/2018:
- Avoiding data disasters - Best practices in Research Data Management for the Biological Sciences - Trainer
- An Introduction to Solving Biological Problems with Python - Trainer
- Working with Python: functions and modules - Trainer
2016/2017:
- An Introduction to Solving Biological Problems with Python - Trainer
- Introduction to Galaxy: Data Manipulation and Visualisation - Trainer
- Basic Unix - Trainer
- Python functions and modules: best practices - Trainer
- Avoiding data disasters - Best practices in Research Data Management for the Biological Sciences - Trainer
- Beginners guide to version control with git - Trainer
2015/2016:
- An Introduction to Solving Biological Problems with Python - Trainer
- Introduction to Galaxy: Data Manipulation and Visualisation - Trainer
- Basic Unix - Trainer
