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Department of Archaeology

 

Biography

I obtained my BSc in Biotechnology from the Polytechnical University of Madrid and MSc in Bioinformatics at the University of Copenhagen, while working in medical transcriptomics. Eventually, I got involved in projects that required the application of bioinformatic skills to large dataset in palaeogenomics and palaeoproteomics. I then worked as a DNRF and Beast to Crafts Research Assistant in computational palaeoproteomics at the University of Copenhagen.

My first contact with archaeology applied bioinformatics, brought me to the McDonald Institute to start a Marie Skłodowska-Curie PhD within the PlaCe ITN project in September 2021.

Research

My research interests are the study of protein decay processes using mass spectrometry and computational proteomics.

My research project centres on the relationship between the inorganic matrix of amphorae and proteins conserved in it in the eastern Mediterranean. How we can extract those proteins, how well preserved they are in different contexts and what they can tell us about storage, transport and culinary practices are the main questions.

Key Publications

Key publications: 
  • Rodriguez Palomo, Ismael; Nair, Bharath; Chiang, Yun; Dekker, Joannes; Dartigues, Benjamin; Mackie, Meaghan; Evans, Miranda; Macleod, Ruairidh; Olsen, Jesper V.; Collins, Matthew J. Benchmarking the identification of a single degraded protein to explore optimal search strategies for ancient proteins. bioRxiv 2023.12.15.571577; doi: https://doi.org/10.1101/2023.12.15.571577.
  • Nair, Bharath; Rodríguez Palomo, Ismael; Markussen, Bo; Wiuf, Carsten; Fiddyment, Sarah; Collins, Matthew James. Parchment Glutamine Index (PQI): A novel method to estimate glutamine deamidation levels in parchment collagen obtained from low-quality MALDI-TOF data. Peer Community Journal, Volume 3 (2023), article no. e10. doi : 10.24072/pcjournal.230. https://peercommunityjournal.org/articles/10.24072/pcjournal.230/
  • Viñas-Caron, LC, Palomo, IR, Fazlic, N, Vnouček, J, Driscoll, M, Fiddyment, S & Collins, MJ 2023, 'A biological reading of a palimpsest', iScience, bind 26, nr. 6, 106786. https://doi.org/10.1016/j.isci.2023.106786

 

Other publications: 
  • Ntasi, G., Palomo, I.R., Marino, G. et al. Molecular signatures written in bone proteins of 79 AD victims from Herculaneum and Pompeii. Sci Rep 12, 8401 (2022). https://doi.org/10.1038/s41598-022-12042-6
  • Bethencourt, J.H., Palomo, I.R., Hickinbotham, S., Nair, B., Soncin, S., Dieu, M., Collins, M. and Deparis, O., 2022. Data From “A Biocodicological Analysis of the Medieval Library and Archive From Orval Abbey, Belgium”. Journal of Open Archaeology Data, 10(0), p.1.DOI: https://doi.org/10.5334/joad.89Bethencourt, J.H., Palomo, I.R., Hickinbotham, S., Nair, B., Soncin, S., Dieu, M., Collins, M. and Deparis, O., 2022. Data From “A Biocodicological Analysis of the Medieval Library and Archive From Orval Abbey, Belgium”. Journal of Open Archaeology Data, 10(0), p.1.DOI: https://doi.org/10.5334/joad.89
  • Larupa Santos J, Rodríguez I, S. Olesen M, Hjorth Bentzen B, Schmitt N (2020) Investigating gene-microRNA networks in atrial fibrillation patients with mitral valve regurgitation. PLoS ONE 15(5): e0232719. https://doi.org/10.1371/journal.pone.0232719

Publication

Journal articles

2023

  • Viñas-Caron, LC., Rodríguez Palomo, I., Fazlic, N., Vnouček, J., Driscoll, M., Fiddyment, S. and Collins, MJ., 2023. A biological reading of a palimpsest. iScience, v. 26
    Doi: http://doi.org/10.1016/j.isci.2023.106786
  • 2022

  • Nair, B., Palomo, IR., Markussen, B., Wiuf, C., Fiddyment, S. and Collins, MJ., 2022. Parchment Glutamine Index (PQI): A novel method to estimate glutamine deamidation levels in parchment collagen obtained from low-quality MALDI-TOF data
    Doi: http://doi.org/10.1101/2022.03.13.483627
  • Bethencourt, JH., Palomo, IR., Hickinbotham, S., Nair, B., Soncin, S., Dieu, M., Collins, M. and Deparis, O., 2022. Data From “A Biocodicological Analysis of the Medieval Library and Archive From Orval Abbey, Belgium” Journal of Open Archaeology Data, v. 10
    Doi: 10.5334/joad.89
  • Ntasi, G., Palomo, IR., Marino, G., Piaz, FD., Cappellini, E., Birolo, L. and Petrone, P., 2022. Molecular signatures written in bone proteins of 79 AD victims from Herculaneum and Pompeii. Sci Rep, v. 12
    Doi: http://doi.org/10.1038/s41598-022-12042-6
  • 2020

  • Larupa Santos, J., Rodríguez, I., S Olesen, M., Hjorth Bentzen, B. and Schmitt, N., 2020. Investigating gene-microRNA networks in atrial fibrillation patients with mitral valve regurgitation. PLoS One, v. 15
    Doi: http://doi.org/10.1371/journal.pone.0232719
  • Teaching and Supervisions

    Teaching: 

    2022/23 Supervisor for: A11/B5 From Data to Interpretation

    Research supervision: 

    Supervisors: Prof Matthew J. Collins and Prof Marcos Martinón-Torres

    Job Titles

    PhD Student in Archaeology

    General Info

    Not available for consultancy
    Research Expertise / Fields of study: 
    Biomolecular Archaeology
    Computational and Quantitative Archaeology

    Contact Details

    ir332 [at] cam.ac.uk

    Affiliations

    Person keywords: 
    Palaeoproteomics, Bioinformatics, Diagenesis, Computational proteomics, Statistics
    Subjects: 
    Archaeology
    Themes: 
    Science, Technology and Innovation
    Geographical areas: 
    Mediterranean
    Periods of interest: 
    Classical - Roman
    Copper/Bronze Age
    Iron Age