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Genomics Unit

Genomics Unit

1. Genomics Unit. Laboratory of Genomics and Microarrays (LABGEN)

The main objective of the Genomics and Microarrays Laboratory is to contribute to the integration of high-throughput genomic analysis technologies in hospital practice in order to personalise clinical decision-making through the discovery of prognostic and predictive biomarkers of drug response (pharmacogenomics). The advances in medicine brought about by the knowledge of the human genome and the development of technologies such as microarrays are leading to unprecedented progress in the possibilities and clinical management of patients. These methodologies are essential especially in multifactorial pathologies, where classification by traditional histopathological methods is insufficient to predict the course to be taken or to study the suitability of the treatment to be followed. Molecular markers identified following a genomic study combined with clinical factors provide information that has the potential to identify unique characteristics of each individual, and therefore, personalise the clinical strategies to be applied.

The Genomics and Microarrays Laboratory is a member of the Network of Laboratories of the Community of Madrid, with registration number 325.

2. Genomics Unit. Laboratory of Molecular Oncology (LABINMUNO)

Laboratory of Molecular Oncology: Study of genetic susceptibility to cancer and study of molecular biomarkers.

3. Genomics Unit. Laboratory of Immunogenetics and Sequencing (LABINMUNO)

4. Genomics Unit. Microbiota Laboratory (LABMIC)

Our knowledge about the composition and functions of the microbiota is currently growing exponentially, largely due to the development of so-called Next Generation Sequencing (NGS) technologies that allow the analysis of the genetic and metabolic profiles of entire microbial communities without the need for culture (metagenomics). The Microbiota STU offers the possibility to analyse the biodiversity and study the abundance of microorganism species in an ecosystem, as well as to identify bacterial proteins with specific functionalities or enzymatic activities.

This STU is created with the conviction that, in the not-too-distant future, knowledge of our microbiota will help us to create another dimension of personalised medicine, leading to better diagnostics, prognostics and therapeutics for patients.

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Lines of work

+ Info

Services offered

A: Genomics Unit. Laboratory of Genomics and Microarrays (LABGEN)

  • Analysis of RNA quality using the Bioanalyser.
  • Transcriptomic analysis (mRNA). GE microarrays (Gene Expression).
  • CNV analysis (Copy-Number-Variation) / Array-CGH microarrays (Comparative Genomic Hybridization) and SNP-CGH.
  • MicroRNA expression analysis. miRNAs microarrays.
  • DNA methylation analysis. CpG-island and methylation microarrays.
  • Chromatin Immunoprecipitation Analysis. Microarrays de ChIP-on-chip.
  • “Custom Microarrays” by means of e-array.

B: Genomics Unit. Laboratory of Molecular Oncology (LABINMUNO)

  • Study of mutations and major rearrangements in BRCA1
  • Study of mutations and major rearrangements in BRCA2
  • Study of mutations and major rearrangements in MLH1
  • Study of mutations and major rearrangements in MSH2
  • Study of mutations and major rearrangements in MSH6
  • Study of P53 mutations
  • Study of MYH mutations
  • Study of RAD51C mutations
  • Study of OGG1 mutations
  • Study of NUDT1 mutations
  • Study of XRCC1 mutations
  • Study of Pi3K mutations
  • Study of KRAS and NRAS mutations
  • Study of BRAF mutations
  • Microsatellite study, sequencing, HRM, fragments.
  • Purification of DNA, RNA, cDNA from blood, tissues, and paraffin-embedded tumour tissues
    Digital PCR, NGS
  • Detection of circulating tumour cells.

C: Unidad de Genómica. Laboratorio de Inmunogenética y Secuenciación (LABINMUNO)

  • Genome sequencing.
  • Fragment analysis.
  • Microsatellite study.
  • Study of genetic markers by real-time PCR.
  • Gene expression study.
  • Other genomics studies.

D: Genomics Unit. Microbiota Laboratory (LABMIC)

  • Bacterial DNA extraction DNA from various niches (faeces, intestine, air, etc). from various niches (faeces, gut, air, etc).
  • Sample preparation, library generation and 16S ribosomal gene sequencing (DNA and RNA) using massive sequencing equipment.
  • Analysis and integration of bacterial sequence data by bioinformatics analysis.
  • Quantification of bacterial products in blood and urine (SCFA, p-Cresol, TMAO, etc).
  • Quantification of markers of inflammation (IL-1β, IL-18, TNFα, etc.) and immune activation (CD4+/CD38+, CD8+/CD38+, CD8+/CD38+/HLADR+).
  • Quantification of markers of intestinal barrier permeability (lactulose/mannitol ratio) and bacterial translocation (LPS, CD14s).

These services have approved fees in force.

Click here to download the tariffs (PDF).

 

More info

Current customers:

    • HCSC:
      • Pathological Anatomy Department (Dr. Julián Sanz) (past)
      • Immunology Clinical Management Unit (Dr. Silvia Sánchez Ramón)
      • Medical Oncology Department
      • Psychiatry Department
      • Clinical Microbiology Clinical Management Unit
      • Clinical Analysis Clinical Management Unit
      • Haematology and Haemotherapy Department
      • Rheumatology Clinical Management Unit
      • Pathological Anatomy Department
      • Neurology Department
      • Intensive Care Medicine Service
      • Cardiovascular Risk Group
      • General Surgery and Digestive Tract Department
      • Endocrinology Department
      • Cardiology Department
    • Bayer
    • Pharmamar
    • Instituto Carlos III:
      • Department of Medical Bioinformatics (Dr. Victoria López Alonso)
    • Genetic Counselling:
      • Hospital de la Princesa
      • Hospital Puerta de Hierro
      • Hospital del Henares
      • Hospital del Niño Jesús
      • Hospital de Torrejón
    • Hospital Insular de Canarias:Clinical Analyses Laboratory
    • Universidad Complutense de Madrid: Faculty of Medicine
    • Neurology Department, Hospital Príncipe de Asturias,Alcalá de Henares, Madrid
    • Translational Haematology Department, Instituto de Investigación Hospital 12 de octubre(i+12), Madrid
    • Physiology Department, Faculty of Medicine,UCM, Madrid
    • Nephrology and Hypertension, Vascular Pathology & Diabetes Group, Fundación Jiménez Díaz-UAM, Madrid
    • Instituto de Biología y Genética Molecular (IBGM)-CSIC, Valladolid

Potential customers:

  • HCSC:

  • Lipids and Hypertension Unit.

  • Medical Oncology Department (Clinical Trials).

  • Immunology Clinical Management Unit (Clinical Trials).

  • Microbiology Department (Clinical Trials).

  • Any user interested in studying the composition of the gut microbiota by massive sequencing techniques.

The Biobank is attached to 2 external committees:

Relevant publications:

  • YEAR PUBLICATION TITLE
    2012 BMC Cancer, vol. 12, no. 1. p. 260, 2012 Colon cancer molecular subtypes identified by expression profiling and associated to stroma, mucinous type and different clinical behavior,
    2015 Nat. Med., Nov;21(11):1350-6, 2015 The consensus molecular subtypes of colorectal cancer

    The Genomics and Microarrays Laboratory is a member of the Network of Laboratories of the Community of Madrid, with registration number 325.

  • Nº Registro 325

RESEARCH TRAINING

  • 2019

    • Master’s Thesis in Translational Medicine (UCM):

    Effect of bariatric surgery on the composition of the intestinal microbiota of morbidly obese patients. Comparison of gastric bypass and SADI-S techniques. Grade: 9.6.

     

    • Master’s Thesis in Bioinformatics and Computational Biology (UAM):

    Development of a pipeline for the analysis of metagenomic data obtained by sequencing multiple variable regions of the 16S rRNA gene by massive sequencing. Qualification: 9.7.

    ​

    2018

    • Master’s Thesis in Translational Medicine (UCM):

    Role of the intestinal microbiota in the development of heart failure in a hypertensive rat model. Grade: 10.

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    • Doctoral thesis at the Faculty of Medicine of the UCM:

    Study of the relationship of bacterial metabolites trimethylamine N-oxide and trimethylamine with cardiovascular disease and renal function in HIV-infected patients. Qualification: Outstanding cum laude unanimously.

    ​

    2017

    • Final Degree Project in Biology (UCM):

    Analysis of the intestinal microbiota in an experimental model of multiple sclerosis. Grade: 8.5.

    2016

    • Master’s Thesis in Microbiology (UAM):

    Role of intestinal microbiota in acute myocardial infarction associated or not with obesity. Grade: 9.5.

    ​

    • Master’s Thesis in Microbiology (UAM):

    Effect of a mitochondrial antioxidant on gut microbiota in obesity. Grade: 10.

    Sección 1 Solicitante:

      • Sección 2 Proyecto:

      • Sección 3 Muestras:

      I-DONANTE

      • II-DONACIÓN

      • III-MUESTRAS