A5037163163- Microbial Metabolic Engineering and Bioproduction
- Bioinformatics and Genomic Networks
- RNA modifications and cancer
- RNA Research and Splicing
- Gene Regulatory Network Analysis
- Multiple Myeloma Research and Treatments
- RNA and protein synthesis mechanisms
- Protein Degradation and Inhibitors
- Circular RNAs in diseases
- Chemokine receptors and signaling
- Hematopoietic Stem Cell Transplantation
- Metabolomics and Mass Spectrometry Studies
- Cancer-related molecular mechanisms research
- Plant Virus Research Studies
- Acute Myeloid Leukemia Research
- HIV/AIDS drug development and treatment
- Biofuel production and bioconversion
Universidad de Navarra
2020-2024
Centro de Estudios e Investigaciones Técnicas de Gipuzkoa
2023-2024
Biogipuzkoa Health Research Institute
2020
The development of computational tools for the systematic prediction metabolic vulnerabilities cancer cells constitutes a central question in systems biology. Here, we present gmctool, freely accessible online tool that allows us to accomplish this task simple, efficient and intuitive environment. gmctool exploits concept genetic Minimal Cut Sets (gMCSs), theoretical approach synthetic lethality based on genome-scale networks, including unique database lethals computed from Human1, most...
Synthetic lethality (SL) is a promising concept in cancer research. A wide array of computational tools has been developed to predict and exploit synthetic for the identification tumour-specific vulnerabilities. Previously, we introduced genetic Minimal Cut Sets (gMCSs), theoretical approach SL genome-scale metabolic networks. The major challenge our gMCS framework go beyond networks extend existing algorithms more complex protein-protein interactions. In this article, take step further...
The identification of minimal genetic interventions that modulate metabolic processes constitutes one the most relevant applications genome-scale models (GEMs). concept Minimal Cut Sets (MCSs) and its extension at gene level, (gMCSs), have attracted increasing interest in field Systems Biology to address this task. Different computational tools been developed calculate MCSs gMCSs using both commercial open-source software.
Alternative splicing (AS) plays a key role in cancer: all its hallmarks have been associated with different mechanisms of abnormal AS. The improvement the human transcriptome annotation and availability fast accurate software to estimate isoform concentrations has boosted analysis profiling from RNA-seq. statistical AS is challenging problem not yet fully solved. We included EventPointer (EP), Bioconductor package, novel method that can use bootstrap pseudoaligners. compared it other...
The presence of anti-myelin lipid-specific oligoclonal IgM bands (LS-OCMBs) has been defined as an accurate predictor aggressive evolution multiple sclerosis. However, the detection this biomarker is performed in cerebrospinal fluid, a quite invasive liquid biopsy. In present study we aimed at studying expression profile miRNA, snoRNA, circRNA and linearRNA peripheral blood mononuclear cells (PBMCs) from patients with band characterization. We included total 89 MS patients, 47 negative...
ABSTRACT Motivation The identification of minimal genetic interventions that modulate metabolic processes constitutes one the most relevant applications genome-scale models (GEMs). concept Minimal Cut Sets (MCSs) and its extension at gene level, (gMCSs), have attracted increasing interest in field Systems Biology to address this task. Different computational tools been developed calculate MCSs gMCSs using both commercial open-source software. Results Here, we present gMCSpy , an efficient...
Cancer metabolism is a marvellously complex topic, in part, due to the reprogramming of its pathways self-sustain malignant phenotype disease, detriment healthy counterpart. Understanding these adjustments can provide novel targeted therapies that could disrupt and impair proliferation cancerous cells. For this very purpose, genome-scale metabolic models (GEMs) have been developed, with Human1 being most recent reconstruction human metabolism. Based on GEMs, we introduced genetic Minimal Cut...
Abstract Motivation Alternative splicing plays a pivotal role in various biological processes. In the context of cancer, aberrant patterns can lead to disease progression and treatment resistance. Understanding regulatory mechanisms underlying alternative is crucial for elucidating identifying potential therapeutic targets. Results We present DeepRBP, deep learning (DL) based framework identify RNA-binding proteins (RBP)-Gene regulation pairs further in-vitro validation. DeepRBP composed DL...
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Abstract Synthetic lethality (SL) is a promising concept in cancer research. A wide array of computational tools has been developed to predict and exploit synthetic for the identification tumour-specific vulnerabilities. Previously, we introduced genetic Minimal Cut Sets (gMCSs), theoretical approach SL genome-scale metabolic networks. The major challenge our gMCS framework go beyond networks extend existing algorithms more complex protein-protein interactions. We present here novel...