Browsing by Author "Marchese, Domenica, 1986-"

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  • Marchese, Domenica, 1986-; Livi, Carmen Maria; Tartaglia, Gian Gaetano (Humana Press (Springer Imprint), 2016)
    Protein–RNA interactions play important roles in a wide variety of cellular processes, ranging from transcriptional and posttranscriptional regulation of genes to host defense against pathogens. In this chapter we present ...
  • Nieto, Paula; Elosua-Bayés, Marc; Trincado Alonso, Juan Luis, 1987-; Marchese, Domenica, 1986-; Massoni-Badosa, Ramon; Nieto, Juan C.; Aguilar-Fernández, Sergio; Mereu, Elisabetta; Moutinho, Catia; Ruiz, Sara; Lorden, Patricia; Gut, Ivo Glynne; Heyn, Holger (Cold Spring Harbor Laboratory Press (CSHL Press), 2021)
    The tumor immune microenvironment is a main contributor to cancer progression and a promising therapeutic target for oncology. However, immune microenvironments vary profoundly between patients, and biomarkers for prognosis ...
  • Marchese, Domenica, 1986-; Sanchez de Groot, Natalia; Lorenzo Gotor, Maria de las Nieves; Livi, Carmen Maria; Tartaglia, Gian Gaetano (Wiley, 2016)
    From transcription, to transport, storage, and translation, RNA depends on association with different RNA-binding proteins (RBPs). Methods based on next-generation sequencing and protein mass-spectrometry have started to ...
  • Agostini, Federico, 1985-; Zanzoni, Andreas; Klus, Petr, 1985-; Marchese, Domenica, 1986-; Cirillo, Davide; Tartaglia, Gian Gaetano (Oxford University Press, 2013)
    SUMMARY: Here we introduce catRAPID omics, a server for large-scale calculations of protein-RNA interactions. Our web server allows (i) predictions at proteomic and transcriptomic level; (ii) use of protein and RNA sequences ...
  • Tartaglia, Gian Gaetano; Cirillo, Davide; Marchese, Domenica, 1986-; Agostini, Federico, 1985-; Livi, Carmen Maria; Botta Orfila, Teresa (BioMed Central, 2014)
    Background: RNA-binding proteins regulate a number of cellular processes, including synthesis, folding, translocation, assembly and clearance of RNAs. Recent studies have reported that an unexpectedly large number of ...
  • Nadeu, Ferran; Massoni-Badosa, Ramon; Ruiz Gil, Sara; Marchese, Domenica, 1986-; López Bigas, Núria; Gut, Ivo Glynne; Heyn, Holger; Campo, Elias (Nature Research, 2022)
    Richter transformation (RT) is a paradigmatic evolution of chronic lymphocytic leukemia (CLL) into a very aggressive large B cell lymphoma conferring a dismal prognosis. The mechanisms driving RT remain largely unknown. ...
  • Marchese, Domenica, 1986-; Botta Orfila, Teresa; Cirillo, Davide; Rodríguez, Juan Antonio; Livi, Carmen Maria; Fernández-Santiago, Ruben; Ezquerra, Mario; Martí, Maria José; Bechara, Elias; Tartaglia, Gian Gaetano; Catalan multiple system atrophy-registry (CMSAR) (Oxford University Press, 2017)
    Recent evidence indicates a link between Parkinson's Disease (PD) and the expression of a-synuclein (SNCA) isoforms with different 3' untranslated regions (3'UTRs). Yet, the post-transcriptional mechanisms regulating SNCA ...
  • Rubio Pérez, Carlota; Trincado Alonso, Juan Luis, 1987-; Marchese, Domenica, 1986-; Moutinho, Catia; Ruiz, Sara; Parra Farré, Genís; Heyn, Holger; Seoane, Joan (Nature Research, 2021)
    Brain metastases are the most common tumor of the brain with a dismal prognosis. A fraction of patients with brain metastasis benefit from treatment with immune checkpoint inhibitors (ICI) and the degree and phenotype of ...
  • Garrido Trigo, Alba; Marchese, Domenica, 1986-; Caratù, Ginevra; Heyn, Holger; Salas, Azucena (Nature Research, 2023)
    Ulcerative colitis and Crohn's disease are chronic inflammatory intestinal diseases with perplexing heterogeneity in disease manifestation and response to treatment. While the molecular basis for this heterogeneity remains ...
  • Cirillo, Davide; Agostini, Federico, 1985-; Klus, Petr, 1985-; Marchese, Domenica, 1986-; Rodríguez, Silvia; Bolognesi, Benedetta; Tartaglia, Gian Gaetano (Cold Spring Harbor Laboratory Press (CSHL Press), 2013)
    Increasing evidence indicates that RNA plays an active role in a number of neurodegenerative diseases. We recently introduced a theoretical framework, catRAPID, to predict the binding ability of protein and RNA molecules. ...
  • Zanzoni, Andreas; Marchese, Domenica, 1986-; Agostini, Federico, 1985-; Bolognesi, Benedetta; Cirillo, Davide; Botta-Orfila, Maria; Livi, Carmen Maria; Rodriguez-Mulero, Silvia; Tartaglia, Gian Gaetano (Oxford University Press, 2013)
    Previous evidence indicates that a number of proteins are able to interact with cognate mRNAs. These autogenous associations represent important regulatory mechanisms that control gene expression at the translational level. ...
  • Massoni-Badosa, Ramon; Iacono, Giovanni; Moutinho, Catia; Kulis, Marta; Palau, Núria; Marchese, Domenica, 1986-; Rodríguez Ubreva, Javier; Ballestar, Esteban; Rodríguez Esteban, Gustavo; Marsal, Sara; Aymerich, Marta; Colomer Pujol, Dolors; Campo, Elias; Julià Cano, Antoni; Martín-Subero, José I.; Heyn, Holger (BioMed Central, 2020)
    Robust protocols and automation now enable large-scale single-cell RNA and ATAC sequencing experiments and their application on biobank and clinical cohorts. However, technical biases introduced during sample acquisition ...
  • Barmada, Anis; Marchese, Domenica, 1986-; Heyn, Holger; Rodríguez Ubreva, Javier (Wiley, 2023)
    In COVID-19, hyperinflammatory and dysregulated immune responses contribute to severity. Patients with pre-existing autoimmune conditions can therefore be at increased risk of severe COVID-19 and/or associated sequelae, ...
  • Rop, Florian V. de; Rafels-Ybern, Àlbert; Marchese, Domenica, 1986-; Caratù, Ginevra; Iglesias, Marta; Najle, Sebastián R.; Sebé-Pedrós, Arnau; Heyn, Holger (Nature Research, 2024)
    Single-cell assay for transposase-accessible chromatin by sequencing (scATAC-seq) has emerged as a powerful tool for dissecting regulatory landscapes and cellular heterogeneity. However, an exploration of systemic biases ...

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