Research Program. Precision Nutrition and Cancer

Computational Biology

Group leader: Dr. Enrique Carrillo de Santa Pau

Objectives: Our group aims to apply integrative computational analyses and to develop bioinformatics resources to study the nutrition-disease interactions through molecular variability responses. Complex analytical strategies are key for understanding the relationships between food, genes, environment and diseases and to develop precision nutrition strategies based on individual molecular background. The group is currently focused on four topics:

1. Metabolic Variability to study the complex molecular relationships between food/diet bioactive compounds and drugs interactions from structured and unstructured resources.

2. Microbiome-Host interaction for characterizing the microbiome disruption in complex diseases like colorectal cancer or celiac disease and study the effects of food bioactive compounds in microbiome modulation for a healthy gut and precision nutrition strategies.

3. Bioinformatic tools development to integrate and facilitate the analysis, visualization and interpretation of complex, heterogeneous and disperse molecular food datasets.

4. Citizen Science bringing the science and knowledge generated in our group closer to the people.

Dr. Enrique Carrillo de Santa Pau

Group leader of the Computational Biology Group

Dr. Enrique Carrillo de Santa Pau, obtained his Bachelor’s degree (BSc) at the “Complutense” University (Madrid) in 2002. He completed a PhD training program (2002-2007) in Biochemistry and Molecular Biology at “Ramón y Cajal” Hospital. In 2007, he moved at Primary Health Care Service in Madrid to study Diabetes Mellitus as part of MADIABETES. He got an MsC in Bioinformatics and Computational Biology (UCM, 2009). In 2010 he joined Dr. Stunnenberg’s group at Nijmegen Centre for Molecular Life Sciences (The Netherlands) to study the role of 5hmC from a genome wide perspective. In 2011, he moved at Spanish National Cancer Research Centre (CNIO) where he was responsible for the bioinformatic analyses at the Carcinogenesis Epithelial Group lead by Dr. F.X. Real. In addition, he participated in the analysis of large-scale ‘omic’ datasets from the EU high impact initiative: “BLUEPRINT of Haematopoietic Epigenomes”, within Dr. A. Valencia’s group. From April 2018 he joined IMDEA Food Institute to lead the Computational Biology Group.

Email: enrique.carrillo@imdea.org 
Phone: +34 91 727 81 00, ext. 304

Members

Sheyla Karina Ordóñez Cabascango

  Technical Support
”Sheyla Ordóñez was graduated in Food Science and technology in 2017 at Universidad Rey Juan Carlos in Madrid-Spain. In 2018, she graduated from a certificate of professionalism in Enology at Universidad Politécnica de Madrid, which allowed her to work as a Laboratory Assistant. Recently she got a certificate in Microbiological and Biotechnological Analysis and joined the Computational Biology Group at IMDEA Food Institute in April 2021 where she is working as a Technical Support Assistant for “Picture your microbes” project.”

Email: sheyla.ordonez@imdea.org 

Students

Jacobo Solórzano Gómez

Marco Garranzo Asensio

Illaria Pace

Juliana Estefanía Arcila Galvis

                                  

most relevant publications
  • Bergmann AK, Fataccioli V, Castellano G, Martin-Garcia N, Pelletier L, Ammerpohl O, Bergmann J, Bhat J, Carrillo de Santa Pau E, Martín-Subero JI, Moffitt AB, Valencia A, Oberg HH, Wesch D, Jayne S, Dyer MJS, Kabelitz D, Gaulard P, Siebert R. DNA methylation profiling of hepatosplenic T-cell lymphoma. Haematologica. 2019 Mar;104(3):e104-e107. doi: 10.3324/haematol.2018.196196. Epub 2018 Oct 18. PMID: 30337361; PMCID: PMC6395348.>
  • Isidoro Cobo; Paola Martinelli; Marta Flan-dez; Latifa Bakiri; Mingfeng Zhang; Enrique Carrillo-de-Santa-Pau; Jinping Jia; Liv Thom-mesen; Torunn Bruland; Natalia del Pozo; et al. Transcriptional regulation by NR5A2 links differentiation and inflammation in the pancreas. Nature. 10.1038/nature25751, Nature Publishing Group, 2018. Available on-line at: http://dx.doi.org/10.1038/nature25751
  • Enrique Carrillo-de-Santa-Pau*; David Juan*; Vera Pancaldi; Felipe Were; Ignacio Martin-Subero; Daniel Rico; Alfonso Valencia; BLUEPRINT Consortium. Automatic identification of informative regions with epigenomic changes associated to hematopoiesis. Nucleic acids research. 45 - 16, pp. 9244 - 9259. Oxford University Press, 2017. *Co-First authors.
  • Marcos-Zambrano LJ, Gómez A, Sánchez-Carrillo C, Bouza E, Muñoz P, Escribano P, Guinea J. Isavuconazole is highly active in vitro against Candida species isolates but shows trailing effect. Clin Microbiol Infect. 2020 Nov;26(11):1589-1592. doi: 10.1016/j.cmi.2020.07.023. Epub 2020 Jul 23. Erratum for: Clin Microbiol Infect. 2018 Dec;24(12):1343.e1-1343.e4. PMID: 32712246.
  • Bruch A, Laguna T, Butter F, Schaffrath R, Klassen R. Misactivation of multiple starvation responses in yeast by loss of tRNA modifications. Nucleic Acids Res. 2020 Jul 27;48(13):7307-7320. doi: 10.1093/nar/gkaa455. PMID: 32484543; PMCID: PMC7367188.

main research grants

Principal Investigator: Enrique Carrillo de Santa Pau
Participant Investigator: Teresa Laguna, Marco Garranzo & Carlos Madariaga
Project Title: Food Nutrition & Security Cloud (FNS-Cloud)
Date: 2019-2023
Funded by: H2020-EU.3.2.2.3, Grant agreement ID: 863059

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Participant Investigator: Laura J. Marcos
Project Title: From Aging Biology to Sustainable Interventions: a microbiome-based anti-aging approach.
Date: 2020-2023
Funded by:Proyectos I+D+i 2019 - Retos Investigación. (PID2019-106893RA-100) . Ministerio de Ciencia, Innovación y Universidades

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Participant Investigator: Enrique Carrillo de Santa Pau & Teresa Laguna
Project Title: Chronic DISease COntrol through VERY effective nutritional FORmulae (FORDISCOVERY)
Date: 2020-2022
Funded by: Proyectos I+D+i 2019 - Retos Investigación. (PID2019-107650RB-C22) . Ministerio de Ciencia, Innovación y Universidades

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Participant Investigator: Enrique Carrillo de Santa Pau
Project Title: Fórmulas terapéuticas de nutrición de precisión para el cáncer - ALIBIRD2020-CM
Date: 2019-2022
Funded by: Comunidad de Madrid (P2018/BAA-4343)

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Participant Investigator: Enrique Carrillo de Santa Pau & Laura J. Marcos
Project Title: COST Action CA18131 (“Statistical and machine learning techniques in human microbiome studies”)
Date: 2018-2022
Funded by: The European Cooperation in Science and Technology (COST)

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Principal Investigator: Laura J. Marcos
Project Title: Profiling host-microbiome interactions in non-responding Celiac Disease symptoms persistence
Date: 2020-2021
Funded by: European Society of Clinical Microbiology and Infectious Diseases

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Principal Investigator: Laura J. Marcos
Project Title: Picture your microbes: A co-creation participatory action to empower citizens on nutritional health decisions
Date: 2021
Funded by: European Institute of Innovation & Technology in Food

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Participant Investigator: Enrique Carrillo de Santa Pau
Project Title:Nutritional strategies and bioactive compounds to target lipid metabolism alterations in cancer: Platform of Patient derived Paired Organoids for Precision Nutrition
Date: 2019-2021
Funded by: Fundación Ramón Areces

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Participant Investigator: Enrique Carrillo de Santa Pau
Project Title:Development and validation of a predictive model of a fatal and non-fatal cardiovascular event after 10 years of follow-up of the Type 2 Diabetes Mellitus cohort from Madrid (MADIABETES)
Date: 2018-2021
Funded by: Fondo de Investigación Sanitaria. Instituto de Salud Carlos III (PI18/01025)

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