Research output per year
Research output per year
Personal profile
Research interests
Carbohydrate chemistry, glycobiology, method development for X-ray crystallography and cryoEM.
Biography
Royal Society University Research Fellow in YSBL (University of York, UK), 2017-present
Postdoctoral research associate in YSBL (University of York, UK), 2013 - 2017
Short stages at IBS in 2009 (Grenoble, France) and Institut Pasteur in 2011 (Paris, France)
PhD in Biophysics in 2009, obtained summa cum laude (Bilbao, Spain)
Computer Engineer, graduated with honours in 2002 (San Sebastian, Spain)
External positions
Postdoctoral research assistant, Fundación Biofisica Bizkaia
29 May 2011 → 9 Apr 2013
Postdoctoral research assistant, University of the Basque Country
29 May 2009 → 28 May 2011
EMBO Short-term fellowship ASTF 309.00-2008, EUROPEAN MOLECULAR BIOLOGY ORGANISATION (EMBO)
5 Jan 2009 → 5 Mar 2009
Keywords
- QD Chemistry
- QA75 Electronic computers. Computer science
Collaborations and top research areas from the last five years
Recent external collaboration on country/territory level. Dive into details by clicking on the dots or
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Allosteric control of dynamin-related protein 1 through a disordered C-terminal Short Linear Motif
Pérez-Jover, I., Rochon, K., Hu, D., Mahajan, M., Madan Mohan, P., Santos-Pérez, I., Ormaetxea Gisasola, J., Martinez Galvez, J. M., Agirre, J., Qi, X., Mears, J. A., Shnyrova, A. V. & Ramachandran, R., 2 Jan 2024, In: Nature Communications. 15, 1, 17 p., 52.Research output: Contribution to journal › Article › peer-review
Open AccessFile -
Beyond publishing: introducing Interviews with authors
Nonato, M. C., van Raaij, M. J. & Agirre, J., 1 Apr 2024, (E-pub ahead of print) In: Acta crystallographica. Section F, Structural biology communications. F80, 1 p., 73.Research output: Contribution to journal › Editorial
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Functional implications of glycans and their curation: insights from the workshop held at the 16th Annual International Biocuration Conference in Padua, Italy
Martinez, K., Agirre, J., Akune, Y., Aoki-Kinoshita, K. F., Arighi, C., Axelsen, K. B., Bolton, E., Bordeleau, E., Edwards, N. J., Fadda, E., Feizi, T., Hayes, C., Ives, C. M., Joshi, H. J., Krishna Prasad, K., Kossida, S., Lisacek, F., Liu, Y., Lütteke, T. & Ma, J. & 16 others, , 13 Aug 2024, In: Database. 2024, 14 p., baae073.Research output: Contribution to journal › Article › peer-review
Open AccessFile
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CCP4 Renewal 2024 New horizons in computational structural biology with CCP4: multiple states, models and methods, use of AI and validation
Agirre, J. (Principal investigator)
BBSRC (BIOTECHNOLOGY AND BIOLOGICAL SCIENCES RESEARCH COUNCIL)
1/08/24 → 31/07/28
Project: Research project (funded) › Research
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A macromolecular structure building toolkit for machine learning and cloud applications
Cowtan, K. (Principal investigator) & Agirre, J. (Co-investigator)
BBSRC (BIOTECHNOLOGY AND BIOLOGICAL SCIENCES RESEARCH COUNCIL)
1/05/23 → 30/04/26
Project: Research project (funded) › Research
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URF Enhancement Award - Years 1, 2 and 3
Agirre, J. (Principal investigator)
1/10/22 → 30/09/25
Project: Research project (funded) › Research
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CCP4-BCA Summer School 2023
Turkenburg, J. P. (Organiser), Agirre, J. (Organiser) & Bond, P. (Organiser)
19 Aug 2023 → 25 Aug 2023Activity: Participating in or organising an event › Conference participation
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CCP4, Research Complex at Harwell, Rutherford Appleton Laboratory, Harwell Oxford, Didcot OX11 0FA, England. (External organisation)
Agirre, J. (Chair)
Feb 2023 → …Activity: Membership › Board
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Proteins by Candlelight 2022
Agirre, J. (Organiser)
2022 → …Activity: Participating in or organising an event › Conference
Datasets
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Dataset of detected, built and improved tryptophan mannosylation in glycoprotein structures
Holland, L. (Creator), Pham, T. (Creator), Agirre, J. (Supervisor), Bagdonas, H. (Contributor), Schofield, L. (Contributor) & Dialpuri, J. (Contributor), University of York, 30 Oct 2024
DOI: 10.15124/15288f97-6ef2-4537-a4b4-6ca60944debf
Dataset
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Updated restraint dictionaries for carbohydrates in the pyranose form
Atanasova, M. (Creator), Nicholls, R. A. (Creator), Joosten, R. (Creator) & Agirre, J. (Creator), Zenodo, 7 Dec 2021
Dataset
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Automated Model Building of Pyranose Carbohydrates
Atanasova, M. (Creator), Agirre, J. (Creator) & Cowtan, K. (Creator), Zenodo, 27 Sept 2022
Dataset