Carles Foguet
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View article: Glutaminase as a metabolic target of choice to counter acquired resistance to Palbociclib by colorectal cancer cells
Glutaminase as a metabolic target of choice to counter acquired resistance to Palbociclib by colorectal cancer cells Open
Several mechanisms of resistance of cancer cells to cyclin-dependent kinase inhibitors (CDKi) have been identified, including the upregulation of metabolic regulators such as glutaminase. However, whether such resistance mechanisms represe…
View article: Integrated clinical risk prediction of type 2 diabetes with a multifactorial polygenic risk score
Integrated clinical risk prediction of type 2 diabetes with a multifactorial polygenic risk score Open
Combining information from multiple GWASs for a disease and its risk factors has proven a powerful approach for development of polygenic risk scores (PRSs). This may be particularly useful for type 2 diabetes (T2D), a highly polygenic and …
View article: Metabolic reaction fluxes as amplifiers and buffers of risk alleles for coronary artery disease
Metabolic reaction fluxes as amplifiers and buffers of risk alleles for coronary artery disease Open
Genome-wide association studies have identified thousands of variants associated with disease risk but the mechanism by which such variants contribute to disease remains largely unknown. Indeed, a major challenge is that variants do not ac…
View article: Metabolic and mitochondria alterations induced by SARS‐CoV‐2 accessory proteins ORF3a, ORF9b, ORF9c and ORF10
Metabolic and mitochondria alterations induced by SARS‐CoV‐2 accessory proteins ORF3a, ORF9b, ORF9c and ORF10 Open
Antiviral signaling, immune response and cell metabolism are dysregulated by SARS‐CoV‐2, the causative agent of COVID‐19. Here, we show that SARS‐CoV‐2 accessory proteins ORF3a, ORF9b, ORF9c and ORF10 induce a significant mitochondrial and…
View article: Glutaminase as a metabolic target of choice to counter acquired resistance to Palbociclib by colorectal cancer cells
Glutaminase as a metabolic target of choice to counter acquired resistance to Palbociclib by colorectal cancer cells Open
Summary Several mechanisms of resistance of cancer cells to cyclin-dependent kinase inhibitors (CDKi) have been identified, including the upregulation of metabolic regulators such as glutaminase. However, whether such mechanisms and target…
View article: Metabolic and mitochondria alterations induced by SARS-CoV-2 accessory proteins ORF3a, ORF9b, ORF9c and ORF10
Metabolic and mitochondria alterations induced by SARS-CoV-2 accessory proteins ORF3a, ORF9b, ORF9c and ORF10 Open
Antiviral signaling, immune response and cell metabolism in human body are dysregulated by SARS-CoV-2, the causative agent of the COVID-19. Here, we show that SARS-CoV-2 accessory proteins ORF3a, ORF9b, ORF9c and ORF10 induce a significant…
View article: Immunometabolic actions of trabectedin and lurbinectedin on human macrophages: relevance for their anti-tumor activity
Immunometabolic actions of trabectedin and lurbinectedin on human macrophages: relevance for their anti-tumor activity Open
In recent years, the central role of cell bioenergetics in regulating immune cell function and fate has been recognized, giving rise to the interest in immunometabolism, an area of research focused on the interaction between metabolic regu…
View article: Control analysis in the identification of key enzymes driving metabolic adaptations: Towards drug target discovery
Control analysis in the identification of key enzymes driving metabolic adaptations: Towards drug target discovery Open
Metabolic Control Analysis (MCA) marked a turning point in understanding the design principles of metabolic network control by establishing control coefficients as a means to quantify the degree of control that an enzyme exerts on flux or …
View article: Supplementary data and code to "An assessment of quaternary structure functionality in homomer protein complexes" by G. Abrusan and C. Foguet, https://doi.org/10.1093/molbev/msad070
Supplementary data and code to "An assessment of quaternary structure functionality in homomer protein complexes" by G. Abrusan and C. Foguet, https://doi.org/10.1093/molbev/msad070 Open
Scripts and high-level data to reproduce the figures and supplementary figures of "An assessment of quaternary structure functionality in homomer protein complexes" by G. Abrusan and C. Foguet, https://doi.org/10.1093/molbev/msad070
View article: Supplementary data and code to "An assessment of quaternary structure functionality in homomer protein complexes" by G. Abrusan and C. Foguet, https://doi.org/10.1093/molbev/msad070
Supplementary data and code to "An assessment of quaternary structure functionality in homomer protein complexes" by G. Abrusan and C. Foguet, https://doi.org/10.1093/molbev/msad070 Open
Scripts and high-level data to reproduce the figures and supplementary figures of "An assessment of quaternary structure functionality in homomer protein complexes" by G. Abrusan and C. Foguet, https://doi.org/10.1093/molbev/msad070
View article: An Assessment of Quaternary Structure Functionality in Homomer Protein Complexes
An Assessment of Quaternary Structure Functionality in Homomer Protein Complexes Open
It has been recently suggested that a significant fraction of homomer protein–protein interfaces evolve neutrally, without contributing to function, due to a hydrophobic bias in missense mutations. However, the fraction of such gratuitous …
View article: Immunometabolic actions of trabectedin and lurbinectedin on human macrophages: Relevance for their antitumor activity
Immunometabolic actions of trabectedin and lurbinectedin on human macrophages: Relevance for their antitumor activity Open
In recent years, the central role of cell bioenergetics in regulating immune cell function and fate has been recognized, giving rise to the interest in immunometabolism, an area of research focused on the interaction between metabolic regu…
View article: A novel gene signature unveils three distinct immune-metabolic rewiring patterns conserved across diverse tumor types and associated with outcomes
A novel gene signature unveils three distinct immune-metabolic rewiring patterns conserved across diverse tumor types and associated with outcomes Open
Existing immune signatures and tumor mutational burden have only modest predictive capacity for the efficacy of immune check point inhibitors. In this study, we developed an immune-metabolic signature suitable for personalized ICI therapie…
View article: A Phase I-II multicenter trial with Avelumab plus autologous dendritic cell vaccine in pre-treated mismatch repair-proficient (MSS) metastatic colorectal cancer patients. GEMCAD 1602 study
A Phase I-II multicenter trial with Avelumab plus autologous dendritic cell vaccine in pre-treated mismatch repair-proficient (MSS) metastatic colorectal cancer patients. GEMCAD 1602 study Open
Background: Immune check-point blockade (ICB) has shown clinical benefit in mismatch repair-deficient/microsatellite instability high metastatic colorectal cancer (mCRC) but not in mismatch repair-proficient/microsatellite stable patients.…
View article: An atlas of genetic scores to predict multi-omic traits
An atlas of genetic scores to predict multi-omic traits Open
Genetically predicted levels of multi-omic traits can uncover the molecular underpinnings of common phenotypes in a highly efficient manner. Here, we utilised a large cohort (INTERVAL; N=50,000 participants) with extensive multi-omic data …
View article: Genetically personalised organ-specific metabolic models in health and disease
Genetically personalised organ-specific metabolic models in health and disease Open
Understanding how genetic variants influence disease risk and complex traits (variant-to-function) is one of the major challenges in human genetics. Here we present a model-driven framework to leverage human genome-scale metabolic networks…
View article: Genome Scale Modeling to Study the Metabolic Competition between Cells in the Tumor Microenvironment
Genome Scale Modeling to Study the Metabolic Competition between Cells in the Tumor Microenvironment Open
The tumor’s physiology emerges from the dynamic interplay of numerous cell types, such as cancer cells, immune cells and stromal cells, within the tumor microenvironment. Immune and cancer cells compete for nutrients within the tumor micro…
View article: Integrating systemic and molecular levels to infer key drivers sustaining metabolic adaptations
Integrating systemic and molecular levels to infer key drivers sustaining metabolic adaptations Open
Metabolic adaptations to complex perturbations, like the response to pharmacological treatments in multifactorial diseases such as cancer, can be described through measurements of part of the fluxes and concentrations at the systemic level…
View article: Mathematica Notebooks supporting "Integrating systemic and molecular levels to infer key drivers sustaining metabolic adaptations"
Mathematica Notebooks supporting "Integrating systemic and molecular levels to infer key drivers sustaining metabolic adaptations" Open
Mathematica notebooks and data for journal article "Integrating systemic and molecular levels to infer key drivers sustaining metabolic adaptations". The zip file contains two Mathematica notebooks (“Wolfram Mathematica 11/12”; www.wolfram…
View article: Cysteine and Folate Metabolism Are Targetable Vulnerabilities of Metastatic Colorectal Cancer
Cysteine and Folate Metabolism Are Targetable Vulnerabilities of Metastatic Colorectal Cancer Open
With most cancer-related deaths resulting from metastasis, the development of new therapeutic approaches against metastatic colorectal cancer (mCRC) is essential to increasing patient survival. The metabolic adaptations that support mCRC r…
View article: Genome-scale integration of transcriptome and metabolome unveils squalene synthase and dihydrofolate reductase as targets against AML cells resistant to chemotherapy
Genome-scale integration of transcriptome and metabolome unveils squalene synthase and dihydrofolate reductase as targets against AML cells resistant to chemotherapy Open
The development of resistance to chemotherapeutic agents, such as Doxorubicin (DOX) and cytarabine (AraC), is one of the greatest challenges to the successful treatment of Acute Myeloid Leukemia (AML). Such acquisition is often underlined …
View article: p13CMFA: Parsimonious 13C metabolic flux analysis
p13CMFA: Parsimonious 13C metabolic flux analysis Open
Deciphering the mechanisms of regulation of metabolic networks subjected to perturbations, including disease states and drug-induced stress, relies on tracing metabolic fluxes. One of the most informative data to predict metabolic fluxes a…
View article: Interoperable and scalable data analysis with microservices: applications in metabolomics
Interoperable and scalable data analysis with microservices: applications in metabolomics Open
Motivation Developing a robust and performant data analysis workflow that integrates all necessary components whilst still being able to scale over multiple compute nodes is a challenging task. We introduce a generic method based on the mi…
View article: PhenoMeNal: processing and analysis of metabolomics data in the cloud
PhenoMeNal: processing and analysis of metabolomics data in the cloud Open
Background Metabolomics is the comprehensive study of a multitude of small molecules to gain insight into an organism's metabolism. The research field is dynamic and expanding with applications across biomedical, biotechnological, and many…