Aarón D. Ramírez-Sánchez

I'm

Latest from the Blog

Short posts on research, science communication, and things I'm thinking about.

About

I am a postdoctoral researcher working to uncover the molecular and genetic triggers of autoimmunity in Type 1 Diabetes, Celiac Disease, and Multiple Sclerosis through multi-omics and translational approaches — bridging bench discoveries to clinical applications.

Aarón D. Ramírez-Sánchez Profile Picture

Postdoctoral Researcher.

Studying the translatome, transcriptome, and epitranscriptome in autoimmunity.

  • Institution: University of the Basque Country (UPV/EHU)
  • Department: Genetics, Physical Anthropology and Animal Physiology
  • City: Leioa, Spain
  • Degree: PhD, University of Groningen
  • Email: aarondaniel.ramirez@ehu.eus
  • ORCID: 0000-0002-3125-4308

My scientific path began in genetic engineering and molecular biology, building vectors to study disease mechanisms in Type 1 Diabetes and Parkinson's disease during my undergraduate and exchange research at UANL (Mexico) and the University of Göttingen (Germany). Later, in industry at Vitagenesis, I led R&D projects developing biomarker and microorganism detection assays — experience in protocol optimization, lab management, and grant writing that carried directly into academia.

My PhD at the University of Groningen, under Dr. Iris Jonkers and Dr. Sebo Withoff, focused on the genetic and epigenetic mechanisms of Celiac Disease. Using single-cell RNA sequencing, I characterized disease-relevant cell types and tissues, uncovering genes, pathways, and cell-type interactions involved in disease onset. As a postdoc in the same group, I extended this work to Multiple Sclerosis, mapping ~30,000 regulatory elements linked to disease susceptibility.

In my current position at the University of the Basque Country, under Dr. Ainara Castellanos and Dr. Izortze Santin, I investigate the potential role of viruses in disrupting translation in insulin-producing beta cells in the context of Type 1 Diabetes, alongside a parallel project on the effects of nutraceuticals in Celiac Disease using single-cell omics. More on both below.

Current Research

Two active, funded projects at the University of the Basque Country, both centered on how molecular disruption drives autoimmunity.

Type 1 Diabetes · Funded by Agencia Estatal de Investigación

Non-canonical translation in pancreatic beta cells

I'm investigating whether viruses disrupt normal protein translation in insulin-producing beta cells, and whether this virus-induced non-canonical translation generates neoantigens that trigger the immune responses seen in Type 1 Diabetes development. The project combines translatome and transcriptome profiling to trace this mechanism from infection to autoimmune onset.

PI: Izortze Santin · Ongoing

Celiac Disease · Single-cell omics

Nutraceuticals and immune cell regulation

In parallel, I'm examining the anti-inflammatory effects of nutraceuticals on immune cells at single-cell resolution, working to establish the gene networks associated with the affected pathways, with an eye toward nutraceutical approaches that could complement existing Celiac Disease management.

PI: Ainara Castellanos · Ongoing

Research Projects

In this section you can find a selection of the research projects I have been working in the last years.

  • All
  • Multiple Sclerosis
  • Celiac Disease
  • RNA
  • Epigenetics
  • Gene Regulation
  • Gut
  • PBMC
  • Cells
Mapping Regularoty elements in Multiple Sclerosis

Mapping Regulatory Elements in Multiple Sclerosis

Selected GWAS-associated variants linked to MS and generated libraries to survey ~30,000 potential gene regulatory elements underlying disease susceptibility.

Studying the transcriptomic landscape of epithelial lining in Celiac Disease

Transcriptomic Landscape of the Epithelial Lining in Celiac Disease

Gene expression and eQTL analysis reflecting the heterogeneity in inflammatory status of the duodenal epithelial lining — published in Genes & Immunity, 2025.

Immunopathogenesis of Celiac Disease

Immunopathogenesis of Celiac Disease

A review of molecular biomarkers for Celiac Disease — past, present, and future directions in disease diagnosis and monitoring — published in IJMS, 2020.

Single-cell transcriptomic landscape in onset of Celiac Disease

Pre-Seroconversion Markers in Pediatric Celiac Disease

Single-cell RNA sequencing of PBMCs from pediatric patients, suggesting potential markers detectable before disease seroconversion — published in Frontiers in Immunology, 2022.

Single-cell transcriptomic landscape in onset of Celiac Disease

Gluten-Specific T Cells in Celiac Disease

Explored the potential impact of Celiac Disease genetic risk factors on T cell receptor signaling in gluten-specific CD4+ T cells — published in Scientific Reports, 2021.

Single-Cell dissociation methods for gut tissue

Single-Cell Dissociation Methods for Gut Tissue

Developed and validated gut biopsy dissociation protocols, now used routinely at UMCG and collaborator labs for downstream single-cell applications — published in Scientific Reports, 2022.

Autologous biopsy-derived co-culture platform for epithelial-T cell crosstalk

Epithelial–T Cell Co-Culture Platform

An autologous biopsy-derived co-culture platform for interrogating intestinal epithelial-T cell crosstalk in Celiac Disease. Preprint, 2026.

Publications

Below is a list of my peer-reviewed publications, showcasing my contributions to scientific research. First author publications papers indicated by *

  • Mooiweer, J., Anwar, S., Ribeiro, N., Ramírez Sánchez, A. D., Simpson, H., et al. (2026). Autologous biopsy-derived co-culture platform for interrogation of intestinal epithelial-T cell crosstalk. bioRxiv.
  • Moerkens, R., Mooiweer, J., Smits, E., Berg, M., Ramírez-Sánchez, A. D., et al. (2025). Gene expression profiling reveals enhanced nutrient and drug metabolism and maturation of hiPSC-derived intestine-on-chip relative to organoids and Transwells. Stem Cell Reports, 102715.
  • Ramírez-Sánchez, A. D.*, Zühlke, S., Aguirre-Gamboa, R., et al. (2025). Transcriptomics and eQTLs reveal inflammatory heterogeneity in the duodenal lining in coeliac disease. Genes & Immunity, 1-12.
  • Moerkens, R., Mooiweer, J., Ramírez-Sánchez, A. D., et al. (2024). An iPSC-derived small intestine-on-chip with self-organizing epithelial, mesenchymal, and neural cells. Cell Reports, 43(7).
  • Ramírez-Sánchez, A. D.*, Chu, X., Modderman, R., et al. (2022). Single-cell RNA sequencing of peripheral blood mononuclear cells from pediatric celiac disease patients suggests potential pre-seroconversion markers. Frontiers in Immunology, 13, 843086.
  • Uniken Venema, W. T., Ramírez-Sánchez, A. D.*, et al. (2022). Gut mucosa dissociation protocols influence cell type proportions and single-cell gene expression levels. Scientific Reports, 12(1), 9897.
  • Bakker, O. B., Ramírez-Sánchez, A. D.*, Borek, Z. A., et al. (2021). Potential impact of celiac disease genetic risk factors on T cell receptor signaling in gluten-specific CD4+ T cells. Scientific Reports, 11(1), 9252.
  • Ramírez-Sánchez, A. D.*, Tan, I. L., Gonera-de Jong, B. C., Visschedijk, M. C., Jonkers, I., & Withoff, S. (2020). Molecular biomarkers for celiac disease: Past, present and future. International Journal of Molecular Sciences, 21(22), 8528.

CV

For the full record — education, complete professional history, funded grants, conference presentations, and teaching activities — download my current CV below.

Aarón D. Ramírez-Sánchez — Curriculum Vitae

Postdoctoral Researcher · University of the Basque Country (UPV/EHU)

Download PDF

Postdoctoral Researcher

10.2025 – Present

University of the Basque Country (UPV/EHU), Leioa, Spain

Postdoctoral Researcher

08.2024 – 06.2025

University Medical Center Groningen, The Netherlands

PhD, Genetics

03.2017 – 07.2024

University of Groningen, The Netherlands

Other Interests

Variety's the very spice of life, That gives it all its flavor.

-William Cowper

Videogames

My biggest hobby is both playing and developing videogames—activities that I deeply enjoy and draw energy from. I play everything, from highly popular games to hidden gems.

Boardgames

I started with boardgames like any other activity, but I was quickly drawn to them because of their complexity, fun, and the memorable moments they create with friends. My favorites are chess and deck-building games.

Reading

One of my greatest pleasures is reading about all kinds of topics, from fiction to non-fiction. I am especially immersed in the sci-fi genre but would never turn down a classic.

Music

I enjoy every aspect of music, from listening to great artists to exploring my own self through this beautiful language. I primarily play the guitar, with some knowledge of piano and bass. I also have personal projects composing and producing my own pieces.

Philosophy

One of my most recent interests is philosophy. It started as a pandemic hobby, but it has stayed and become a meaningful part of my life.

Cooking

As a Mexican, food is essential to life—not just as a way to keep us alive but as a way to truly live a good life. Experimenting with flavors, creating new combinations, and bringing happiness to loved ones through these creations is an experience worth savoring.

Contact

If you have further interest in having a conversation with me to discuss one of the several topics I enjoy, feel free to contact me.

Location:

Barrio Sarriena s/n, Leioa, Spain