A5074100416- Metabolomics and Mass Spectrometry Studies
- Cancer, Hypoxia, and Metabolism
- Ferroptosis and cancer prognosis
- Bioinformatics and Genomic Networks
- Cancer, Lipids, and Metabolism
- Advanced Proteomics Techniques and Applications
- Microbial Metabolic Engineering and Bioproduction
- Bladder and Urothelial Cancer Treatments
- Cancer Immunotherapy and Biomarkers
- Cancer Cells and Metastasis
- Computational Drug Discovery Methods
- Colorectal and Anal Carcinomas
- Cancer Genomics and Diagnostics
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Breast Cancer Treatment Studies
- Gene expression and cancer classification
- Renal cell carcinoma treatment
- Diet and metabolism studies
- vaccines and immunoinformatics approaches
- Estrogen and related hormone effects
- Genetic factors in colorectal cancer
- Pancreatic and Hepatic Oncology Research
- Metabolism, Diabetes, and Cancer
- Advanced Biosensing Techniques and Applications
- MicroRNA in disease regulation
Centre for Biomedical Network Research on Rare Diseases
2019-2023
Instituto de Salud Carlos III
2019-2023
Centro de Investigación Biomédica en Red de Cáncer
2018-2023
Hospital Universitario La Paz
2017-2023
Institute of Molecular Genetics
2018
Molecular Oncology (United States)
2018
Centro de Investigación Biomédica en Red
2018
Universidad Complutense de Madrid
2018
Hospital La Paz Institute for Health Research
2018
Abstract Triple-negative breast cancer is a heterogeneous disease characterized by lack of hormonal receptors and HER2 overexpression. It the only subgroup that does not benefit from targeted therapies, its prognosis poor. Several studies have developed specific molecular classifications for triple-negative cancer. However, these subtypes had little impact in clinical setting. Gene expression data information 494 tumors were obtained public databases. First, probabilistic graphical model...
Abstract Breast cancer is a heterogeneous disease comprising variety of entities with various genetic backgrounds. Estrogen receptor-positive, human epidermal growth factor receptor 2-negative tumors typically have favorable outcome; however, some patients eventually relapse, which suggests heterogeneity within this category. In the present study, we used proteomics and miRNA profiling techniques to characterize set 102 either estrogen receptor-positive (ER+)/progesterone (PR+) or...
Metabolic reprogramming is a hallmark of cancer. It has been described that breast cancer subtypes present metabolism differences and this fact enables the possibility using metabolic inhibitors as targeted drugs in specific scenarios. In study, cell lines were treated with metformin rapamycin, showing heterogeneous response to treatment leading cycle disruption. The genetic causes molecular effects differential characterized by means SNP genotyping mass spectrometry-based proteomics....
Traditionally, bladder cancer has been classified based on histology features. Recently, some works have proposed a molecular classification of invasive tumors. To determine whether proteomics can define subtypes muscle urothelial (MIUC) and allow evaluating the status biological processes its clinical value. 58 MIUC patients who underwent curative surgical resection at our institution between 2006 2012 were included. Proteome was evaluated by high-throughput in routinely archive FFPE tumor...
Muscle-invasive bladder tumors are associated with a high risk of relapse and metastasis even after neoadjuvant chemotherapy radical cystectomy. Therefore, further therapeutic options needed molecular characterization the disease may help to identify new targets. The aim this study was characterize muscle-invasive at level using computational analyses. TCGA cohort cancer patients used describe these tumors. Probabilistic graphical models, layer analyses based on sparse k-means coupled...
Abstract Background Metabolomics has a great potential in the development of new biomarkers cancer and it experiment recent technical advances. Methods In this study, metabolomics gene expression data from 67 localized (stage I to IIIB) breast tumor samples were analyzed, using (1) probabilistic graphical models define associations quantitative without other priori information; (2) Flux Balance Analysis flux activities characterize differences metabolic pathways. Results On one hand, both...
Pancreatic ductal adenocarcinoma (PDAC) is an aggressive disease with overall 5-year survival rate of just 5%. A better understanding the carcinogenesis processes and mechanisms progression PDAC mandatory. Fifty-two patients treated surgery adjuvant therapy, available primary tumors, normal tissue, preneoplastic lesions (PanIN), and/or lymph node metastases, were selected for study. Proteins extracted from small punches analyzed by LC-MS/MS using data-independent acquisition. Proteomics data...
Purpose: To explore the tumor proteome of patients diagnosed with localized clear cell renal cancer (ccRCC) and treated surgery. Material methods: A total 165 FFPE samples from ccRCC were analyzed using DIA-proteomics. Proteomics subtypes defined a consensus cluster algorithm (CCA) characterized by functional approach probabilistic graphical models survival analyses. Results: We identified quantified 3091 proteins, including 2026 high-confidence proteins. Two proteomics (CC1 CC2) CC proteins...
Melanoma is the most lethal cutaneous cancer. New drugs have recently appeared; however, not all patients obtain a benefit of these new drugs. For this reason, it still necessary to characterize melanoma at molecular level. The aim study was explore differences between tumor subtypes, based on BRAF and NRAS mutational status. Fourteen formalin-fixed, paraffin-embedded samples were analyzed using high-throughput proteomics approach, combined with probabilistic graphical models Flux Balance...
Breast cancer (BC) is the most frequent tumour in women. Triple negative tumours (TNBC)-which are associated with minor survival rates-lack markers predictive of response to anticancer drugs. frequently metastasise central nervous system (CNS).The main objective this study was differences protein expression between patients CNS metastases and those without kind spread, propose new biomarkers.A retrospective performed. Targeted proteomics statistical analyses were used identify possible...
Breast cancer is the most frequent tumor in women and its incidence increasing. Neoadjuvant chemotherapy has become standard of care as a complement to surgery locally advanced or poor-prognosis early stage disease. The achievement complete response neoadjuvant correlates with prognosis but it not possible predict who will obtain an excellent response. molecular analysis offers unique opportunity unveil predictive factors. In this work, gene expression profiling 279 samples from patients...
Renal cell carcinoma comprises a variety of entities, the most common being clear-cell, papillary and chromophobe subtypes. These subtypes are related to different clinical evolution; however, therapies have been developed for clear-cell there is not specific treatment based on In this study, one hundred sixty-four paraffin samples from primary nephrectomies localized tumors were analyzed. MiRNAs isolated measured by microRNA arrays. Significance Analysis Microarrays Consensus Cluster...
Anal squamous cell carcinoma (ASCC) is a rare neoplasm. Chemoradiotherapy the standard of care, with no therapeutic advances achieved over past three decades. Thus, deeper molecular characterization this disease still necessary. We analyzed 46 paraffin-embedded tumor samples from patients diagnosed primary ASCC by exome sequencing. A bioinformatics approach focused in identification high-impact genetic variants, which may act as drivers oncogenesis, was performed. The relation between...
Breast cancer is a heterogeneous disease. In clinical practice, tumors are classified as hormonal receptor positive, Her2 positive and triple negative tumors. previous works, our group defined new subgroup, the TN-like subtype, which had prognosis molecular profile more similar to this study, proteomics Bayesian networks were used characterize protein relationships in 96 breast tumor samples. Components obtained by these methods clear functional structure. The analysis of components...
Aim: Differences in metabolism among breast cancer subtypes suggest that plays an important role this disease. Flux balance analysis is used to explore these differences as well drug response. Materials & methods: Proteomics data from tumors were obtained by mass-spectrometry. was performed study metabolic networks. activities pathways calculated and build prognostic models. Results: of vitamin A, tetrahydrobiopterin β-alanine split our population into low- high-risk patients. Additionally,...
Anal squamous cell carcinoma is a rare tumor. Chemo-radiotherapy yields 50% 3-year relapse-free survival rate in advanced anal cancer, so improved predictive markers and therapeutic options are needed. High-throughput proteomics whole-exome sequencing were performed 46 paraffin samples from patients. Hierarchical clustering was used to establish groups
Triple negative breast cancer accounts for 15%-20% of all carcinomas and is clinically characterized by an aggressive phenotype poor prognosis. tumors do not benefit from targeted therapies, so further characterization needed to define subgroups with potential therapeutic value. In this work, the proteomes 125 formalin-fixed paraffin-embedded samples patients diagnosed non-metastatic triple were analyzed using data-independent acquisition + in a LTQ-Orbitrap Fusion Lumos mass spectrometer...
Ovarian cancer is a malignancy with complex immune suppressive microenvironment mediated by the recruitment or induction of cluster differentiation factor 4+ (CD4+) regulatory T cells. The purpose this study was to assess effect neoadjuvant chemotherapy (NACT) on activation in stage IIIc/IV High-Grade Serous Carcinoma (HGSC), and its relationship treatment response.
Abstract Metabolic reprogramming is a hallmark of cancer. We and other authors have previously shown that breast cancer subtypes present metabolism differences. In this study, cell lines were treated with metformin rapamycin. The response was heterogeneous across various cells, leading to cycle disruption in specific conditions. molecular effects these treatments characterized using sublethal doses, SNP genotyping mass spectrometry-based proteomics. Protein expression analyzed probabilistic...
Abstract Pancreatic ductal adenocarcinoma (PDAC) is an aggressive disease with overall 5 year-survival rate of just 5%. A better understanding the carcinogenesis processes and mechanisms progression PDAC mandatory. Fifty-two patients treated surgery adjuvant therapy, available primary tumor, normal tissue, preneoplastic lesions (PanIN), and/or lymph node metastases, were selected for study. Proteins extracted from small punches analyzed by LC-MS/MS using data-independent acquisition....
Immunotherapy based on anti-PD1 antibodies has improved the outcome of advanced melanoma. However, prediction response to immunotherapy remains an unmet need in field. Tumor PD-L1 expression, mutational burden, gene profiles and microbiome have been proposed as potential markers but are not used clinical practice. Probabilistic graphical models classificatory algorithms were classify melanoma tumor samples from a TCGA cohort. A cohort patients with treated PD-1 inhibitors was also analyzed....