Projects

Computational Biomedicine Lab

MultiMBM

Novel computational strategies for the identification of a multi-omics signature for diagnosis and prognosis in melanoma with brain metastases

Patients with metastatic melanoma have one of the highest frequencies of brain metastases when compared to patients with other cancers. In addition, they are less responsive to therapies and have the highest morbidity and mortality of melanoma patients. They currently have few clinical options and knowledge about their mechanisms of function is still limited. We need to know more about the progress of this disease, and for this purpose MultiMBM proposes a powerful strategy that reviews, analyses, summarises and validates in a robust way, all the information available in public databases. This will allow us to find direct and reliable clues to help diagnose and treat patients in a more personalised way, taking into account the specific characteristics of each individual.

Publications:

  1. Unveiling common transcriptomic features between melanoma brain metastases and neurodegenerative diseases. I Soler-Sáez, A Karz, MR Hidalgo, B Gómez-Cabañes, A López-Cerdán, JF Català-Senent, K Prutisto-Chang, NM Eskow, B Izar, T Redmer, S Kumar, MA Davies, M de la Iglesia-Vayá, E Hernando*, F García-García*. Journal of Investigative Dermatology 2024 Sep 24, doi: 10.1016/j.jid.2024.09.005
  2. Novel diagnosis- and progression-related microRNA signatures in melanoma. H Gómez-Martínez, B Gomez-Cabañes, A Lopéz-Cerdan, E Hernando*, F Garcia-Garcia*. bioRxiv 2024 Oct 6. doi: https://doi.org/10.1101/2023.10.20.563284

Last congress contributions:

  1. Melanoma biomarkers identification using novel computational strategies. ISCB-SCS 19th Student Council Symposium on July 23rd, 2023. Lyon, France.  H Gómez-Martínez, A López-Cerdán,  G Antón-Bernat, E Hernando, F García-García.
  2. Multi-omic signature for the diagnosis in melanoma brain metastases. ISCB-SCS 19th Student Council Symposium on July 23rd, 2023. Lyon, France. G Antón-Bernat, H Gómez-Martínez, C Perpiñá-Clérigues, C Magán,  E Hernando, F García-García.
  3. Common hallmarks between melanoma brain metastases and Alzheimer’s disease. ISCB-SCS 19th Student Council Symposium on July 23rd, 2023. Lyon, France. I Soler-Sáez, A Karz, A López-Cerdán, JF Català-Senent, G Antón-Bernat, M de la Iglesia-Vayá, MR Hidalgo, E Hernando, F García-García.

Media: 

Thanks to «Asociación Española Contra el Cáncer».

 

DifNerOmics

Study of sex differences in neurodegenerative diseases with integrative approaches of omics data and biomedical imaging

There are important clinical and epidemiological differences between males and females in many neurodegenerative disorders. The high incidence of these diseases in an increasingly ageing population has intensified the interest and need to understand the relevance of sex in their progression and treatment. In this project, we present a novel characterisation of sex differences in neurodegenerative diseases (Alzheimer Disease, Parkinson Disease and multiple sclerosis), through various computational strategies based on omics, medical imaging, drug repurposing and their integration, with the aim of deepening the understanding of the molecular basis of these pathologies.

 

Publications:

  1. A Deep Transcriptome Meta-Analysis Reveals Sex Differences in Multiple Sclerosis. JF Català-Senent, Z Andreu, MR Hidalgo, I Soler-Sáez, FJ Roig Molina, N Yanguas-Casás, A Neva-Alejo, A López-Cerdán, , M de la Iglesia-Vayá, F García-García*. Neurobiology of Disease, 2023 Apr 5; 181:106113,  doi: https://doi.org/10.1016/j.nbd.2023.106113
  2. Unveiling sex-based differences in Parkinson Disease: a comprehensive meta-analysis of transcriptomic studies. A López-Cerdán, Z Andreu, MR Hidalgo, R Grillo-Risco, JF Català-Senent, I Soler-Sáez, A Neva-Alejo, F Gordillo, M de la Iglesia Vaya, F Garcia-Garcia*. Biology of Sex Differences 2022 Nov 22;13(1):68. doi:  10.1186/s13293-022-00477-5
  3. The role of microRNAs to understand sex-based differences in Alzheimer’s disease. J Llera-Oyola, H Carceller, Z Andreu, MR Hidalgo, I Soler-Sáez, F Gordillo, B Gómez-Cabañes, B Roson, M de la Iglesia-Vayá, R Mancuso, FR Guerini, A Mizokami, F Garcia-Garcia*. Biology of Sex Differences 2024 Jan 31. doi: https://doi.org/10.1186/s13293-024-00588-1
  4.  An integrated approach to identify sex-specific genes, transcription factors, and pathways in Alzheimer’s disease. A López-Cerdán†, Z Andreu†, MR Hidalgo, I Soler-Saéz, M de la Iglesia-Vayá, A Mikozami, FR Guerini, F García-García*.  Neurobiology of Disease 2024 Jul 14.  doi: 10.1016/j.nbd.2024.106605
  5. MetaFun: Unveiling sex differences in multiple omics studies through comprehensive functional meta-analysis.  P Malmierca-Merlo, R Sanchez-Garcia, R Grillo-Risco, I Perez-Diez, JF Català-Senent, S Leon, H Gomez-Martinez, M de la Iglesia-Vaya, MR Hidalgo*, F Garcia-Garcia*. Biology of Sex Differences 2024 Aug. doi: https://doi.org/10.1186/s13293-024-00640-0
  6. Unveiling common transcriptomic features between melanoma brain metastases and neurodegenerative diseases. I Soler-Sáez, A Karz, MR Hidalgo, B Gómez-Cabañes, A López-Cerdán, JF Català-Senent, K Prutisto-Chang, NM Eskow, B Izar, T Redmer, S Kumar, MA Davies, M de la Iglesia-Vayá, E Hernando*, F García-García*. Journal of Investigative Dermatology 2024 Sep 24, doi: 10.1016/j.jid.2024.09.005
  7. The impact of sex on gene expression in the brain of schizophrenic patients: a systematic review and meta-analysis of transcriptomic studies. H Carceller, MR Hidalgo, MJ Escarti, J Nacher, M Iglesia-Vaya, F Garcia-Garcia*. Biology of Sex Differences 2024 Jul 27. doi: 10.1186/s13293-024-00635-x 

Last congress contributions:

  1. Characterising sex differences in neurodegenerative diseases using novel functional genomics strategies. MR Hidalgo, I Soler-Sáez, F Gordillo-González, B Gómez-Cabañes, Z Andreu, H Carceller, J Llera-Oyola, B Rosón, A López-Cerdán, JF Català-Senent, A Porlan, M Pozo-Morales, R Grillo-Risco, P Malmierca-Merlo, I Pérez-Díez, R Sánchez-García, M de la Iglesia-Vayá, R Mancuso, FR Guerini, A Mizokami, F García-García. Congreso Interdisciplinar en Genética Humana. 15-17 de Noviembre 2023, Málaga, España.
  2. Common hallmarks between melanoma brain metastases and Alzheimer’s disease. ISCB-SCS 19th Student Council Symposium on July 23rd, 2023. Lyon, France. I Soler-Sáez, A Karz, A López-Cerdán, JF Català-Senent, G Antón-Bernat, M de la Iglesia-Vayá, MR Hidalgo, E Hernando, F García-García.
  3. Sex differences in Alzheimer’s disease through meta-analysis of single cell studies. ISCB-SCS 19th Student Council Symposium on July 23rd, 2023. Lyon, France. B Gómez-Cabañes, I Soler-Sáez, F Gordillo, H Carceller, MR Hidalgo, F García-García.
  4. Statistical methodology for functional meta-analysis of sex-based disparities in neurological diseases. The 10th International Congress on Industrial and Applied Mathematics 20-25 Aug. 2023, Waseda University, Tokyo, Japan. https://iciam2023.org. MR Hidalgo, F Garcia-Garcia, B Gomez-Cabañes, C Perpiña-Clerigues, I Soler-Saez, F Gordillo, G Anton-Bernat, A López-Cerdan, R Grillo-Risco, JF Català-Senent.
  5. Molecular and functional atlas of sex-differences in secondary-progressive multiple sclerosis: neurons characterization. 3rd Women in Bioinformatics & Data Science LA Conference, 20-23 Sep 2022. I Soler-Sáez, Z Andreu, JF Català-Senent, R Grillo-Risco, A López-Cerdán, A Neva-Alejo, B Gómez-Cabañes, H Carceller, M de la Iglesia-Vayá, MR Hidalgo and F García-García.
  6. Identifying microRNA biomarkers in Multiple Sclerosis exhibiting a sex-related differential pattern. 3rd Women in Bioinformatics & Data Science LA Conference, 20-23 Sep 2022. Ester Muñoz del Campo, José Francisco Català-Senent and Francisco García-García.
  7. Novel integration of single cell transcriptomics studies for the characterization of sex differences in Parkinson disease. 3rd Women in Bioinformatics & Data Science LA Conference, 20-23 Sep 2022. F Gordillo, J Llera Oyola, I Soler-Saez, MR Hidalgo, Z Andreu, M de la Iglesia-Vayá, H Carceller and F García García.
  8. Sex-differences in Alzheimer’s disease: a meta-analysis of microRNA studies. 3rd Women in Bioinformatics & Data Science LA Conference, 20-23 Sep 2022. J Llera Oyola, Z Andreu, I Soler- Sáez, F Gordillo, H Carceller, M de la Iglesia Vayá, MR Hidalgo and F García García.
  9. Sex differences in the molecular basis of multiple sclerosis: meta-analysis of transcriptomic data. 21st European Conference on Computational Biology. 12-21 Sep 2022, Sitges, Barcelona. JF Català-Senent, Z Andreu, MR Hidalgo, FJ Roig, N Yanguas-Casás, A Neva-Alejo, A López-Cerdán, I Soler-Sáez, M de la Iglesia-Vayá, F García-García.
  10. Molecular and functional atlas of sex-differences in multiple sclerosis subtypes analising single cell and single nucleus transcriptomic data. 21st European Conference on Computational Biology. 12-21 Sep 2022, Sitges, Barcelona. I Soler-Sáez, Z Andreu, JF Català-Senent, R Grillo-Risco, A López-Cerdán, A Neva-Alejo, B Gómez, H Carceller, M de la Iglesia-Vayá, MR Hidalgo, F García-García.

Media: 

This research was supported by and partially funded by the Institute of Health Carlos III (project IMPaCT-Data, exp. IMP/00019), co-funded by the European Union, European Regional Development Fund (ERDF, “A way to make Europe”), and PID2021-124430OA-I00 funded by MICIU/AEI/10.13039/501100011033 and by FEDER, UE. Irene Soler-Sáez thanks the Spanish Ministry of Universities for her predoctoral grant FPU20/03544

 

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