Recent Submissions

  • Threats from the Candida parapsilosis complex: the surge of multidrug resistance and a hotbed for new emerging pathogens 

    Gabaldon, Toni (American Society for Microbiology, 2024-11-07)
    Article
    Open Access
    Candida parapsilosis is a common agent of candidiasis that has gained increased attention in recent years, culminating with its recent consideration as a high-priority fungal pathogen by the World Health Organization. ...
  • The ELIXIR Biodiversity Community: Understanding short- and long-term changes in biodiversity 

    Waterhouse, Robert; Adam Blondon, Anne-Françoise; Balech, Bachir; Barta, Endre; Ying Shi Chua, Physilia; Gabaldón, Toni (F1000 Research Ltd, 2024)
    Article
    Open Access
    Biodiversity loss is now recognised as one of the major challenges for humankind to address over the next few decades. Unless major actions are taken, the sixth mass extinction will lead to catastrophic effects on the ...
  • Profiling Bacteria in the Lungs of Patients with Severe Influenza Versus COVID-19 with or without Aspergillosis 

    Feys, Simon; Cardinali-Benigni, Martina; Lauwers, Hanne Moon; Jacobs, Cato; Stevaert, Annelies; Redondo Rios, Alvaro; Gabaldón, Toni (American Thoracic Society, 2024)
    Article
    Open Access
    Rationale: The influence of the lung bacterial microbiome, including potential pathogens, in patients with influenza-associated pulmonary aspergillosis (IAPA) or coronavirus disease (COVID-19)–associated pulmonary aspergillosis ...
  • Trustworthy AI. The AI4EU approach 

    Cortés García, Claudio Ulises; Cortés Martínez, Atia; Barrué Subirana, Cristian (PoS - Proceedings of Science, 2019)
    Conference report
    Open Access
    The Ethical, Legal, Socio-Economic and Cultural aspects of Artificial Intelligence have been a burning issue over the last five years. In the EU, especially this has been brought into focus by the High-Level Experts Group ...
  • MONFIT: multi-omics factorization-based integration of time-series data sheds light on Parkinson’s disease 

    Mihajlovic, Katarina; Malod-Dognin, Noël; Ameli, Corrado; Skupin, Alexander; Pržulj, Nataša (Oxford University Press, 2024-10)
    Article
    Open Access
    Parkinson’s disease (PD) is a severe and complex multifactorial neurodegenerative disease with still elusive pathophysiology preventing the development of curative treatments. Molecular deep phenotyping by longitudinal ...
  • LaFresCat: a Catalan multi-accent speech dataset for text-to-speech 

    Peiró Lilja, Alexandre; Llopart Font, Martí; Armentano Oller, Carme; Giraldo Valencia, José Omar; Esquerra Llucià, Ignasi; Farrús Cabeceran, Mireia; Külebi, Baybars (International Speech Communication Association (ISCA), 2024)
    Conference lecture
    Open Access
    Current generative text-to-speech (TTS) models are very robust and capable of learning the phonetics of a language almost perfectly. To do so, it remains crucial that the speech data used to train such models covers all ...
  • Graphlet-based hyperbolic embeddings capture evolutionary dynamics in genetic networks 

    Windels, Sam F L; Tello Velázquez, Daniel; Rotkevich, Mikhail; Malod Dognin, Noël; Przulj, Natasa (Oxford University Press, 2024-11-04)
    Article
    Open Access
    Motivation Spatial Analysis of Functional Enrichment (SAFE) is a popular tool for biologists to investigate the functional organization of biological networks via highly intuitive 2D functional maps. To create these maps, ...
  • Unlocking a Key Residue in a Lipase for Efficient Polyethylene Terephthalate (PET) Hydrolysis and Influencing Depolymerization Product Profiles 

    Vidal, Paula; Robles Martín, Ana; Fernández Lopez, Laura; Gonzalez Alfonso, Jose L.; Almendral, David; Muñoz Tafalla, David; Francisco J., Plou; Guallar, Victor; Ferrer, Manuel (Wiley, 2024-09-05)
    Article
    Open Access
    Polyethylene terephthalate (PET) pollution is a global challenge. Advancing the bioprospecting of PET-degrading enzymes through metagenomics and using computational and functional methods to identify key positions influencing ...
  • Artificial intelligence across Europe: a study on awareness, attitude and trust 

    Scantamburlo, Teresa; Cortés Martínez, Àtia; Foffano, Francesca; Barrué Subirana, Cristian; Distefano, Veronica; Pham, Long; Fabris, Alessandro (Institute of Electrical and Electronics Engineers (IEEE), 2024)
    Article
    Open Access
    This paper presents the results of an extensive study investigating the opinions on Artificial Intelligence (AI) of a sample of 4,006 European citizens from eight distinct countries (France, Germany, Italy, Netherlands, ...
  • ONCOLINER: A new solution for monitoring, improving, and harmonizing somatic variant calling across genomic oncology centers 

    Martin, Rodrigo; Gaitán, Nicolas; Jarlier, Frédéric; Feuerbach, Lars; Soyres, Henri de; Arbones, Marc; Puiggròs, Montserrat; Ferriz, Alvaro; Gonzalez, Asier; Capella Gutiérrez, Salvador; Royo, Romina; Torrents, David (Elsevier, 2024-09-11)
    Article
    Open Access
    The characterization of somatic genomic variation associated with the biology of tumors is fundamental for cancer research and personalized medicine, as it guides the reliability and impact of cancer studies and genomic-based ...
  • Comparison between 16S rRNA and shotgun sequencing in colorectal cancer, advanced colorectal lesions, and healthy human gut microbiota 

    Bars Cortina, David; Ramon, Elies; Rius Sansalvador, Blanca; Guinó, Elisabet; Garcia Serrano, Ainhoa; Khannous Lleiffe, Olfat; Saus, Ester; Gabaldón, Toni (BioMed Central (BMC), 2024)
    Article
    Open Access
    Background Gut dysbiosis has been associated with colorectal cancer (CRC), the third most prevalent cancer in the world. This study compares microbiota taxonomic and abundance results obtained by 16S rRNA gene sequencing ...
  • Long-term stability of acquired drug resistance and resistance associated mutations in the fungal pathogen Nakaseomyces glabratus (Candida glabrata) 

    Ksiezopolska, Ewa; Schikora Tamarit, Miquel Àngel; Nunez Rodriguez, Juan Carlos; Gabaldon, Toni (Frontiers Media, 2024)
    Article
    Open Access
    The limited number of available antifungal drugs and the increasing number of fungal isolates that show drug or multidrug resistance pose a serious medical threat. Several yeast pathogens, such as Nakaseomyces glabratus ...

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