1.
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9 p, 748.7 KB |
CuBlock : a cross-platform normalization method for gene-expression microarrays
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Junet, Valentin (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Farrés, Judith (Anaxomics Biotech SL) ;
Mas, José M (Anaxomics Biotech SL) ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí")
Cross-(multi)platform normalization of gene-expression microarray data remains an unresolved issue. Despite the existence of several algorithms, they are either constrained by the need to normalize all samples of all platforms together, compromising scalability and reuse, by adherence to the platforms of a specific provider, or simply by poor performance. [...]
2021 - 10.1093/bioinformatics/btab105
Bioinformatics, Vol. 37, Issue 16 (August 2021) , p. 2365-2373
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2.
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12 p, 2.3 MB |
The phylogenetic landscape and nosocomial spread of the multidrug-resistant opportunist Stenotrophomonas maltophilia
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Gröschel, Matthias I. (University Medical Center Groningen. Department of Pulmonary Diseases & Tuberculosis) ;
Meehan, Conor J. (University of Bradford. School of Chemistry and Bioscience) ;
Barilar, Ivan (Research Center Borstel. Molecular and Experimental Mycobacteriology) ;
Diricks, Margo (BioMérieux) ;
Gonzaga, Aitor (Leibniz Institute DSMZ. German Collection of Microorganisms and Cell Cultures) ;
Steglich, Matthias (Leibniz Institute DSMZ. German Collection of Microorganisms and Cell Cultures) ;
Conchillo-Solé, Oscar (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Scherer, Isabell-Christin (University Hospital Schleswig-Holstein. Department of Infectious Diseases and Microbiology) ;
Mamat, Uwe (Cellular Microbiology, Research Center Borstel) ;
Luz, Christian F. (University Medical Center Groningen. Department of Medical Microbiology and Infection Prevention) ;
De Bruyne, Katrien (bioMérieux, Applied Maths NV) ;
Utpatel, Christian (Research Center Borstel. Molecular and Experimental Mycobacteriology) ;
Yero, Daniel (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Gibert, Isidre (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Kampmeier, Stefanie (University Hospital of Münster (Alemanya)) ;
Rahman, Nurdyana Abdul (Singapore General Hospital. Department of Microbiology) ;
Kresken, Michael (Rheinische Fachhochschule Köln gGmbH) ;
van der Werf, Tjip S. (University Medical Center Groningen. Department of Pulmonary Diseases & Tuberculosis) ;
Alio, Ifey (University of Hamburg. Department of Microbiology and Biotechnology) ;
Streit, Wolfgang R. (University of Hamburg. Department of Microbiology and Biotechnology) ;
Zhou, Kai (Jinan University. Second Clinical Medical College) ;
Schwartz, Thomas (Karlsruhe Institute of Technology) ;
Rossen, John W. A. (University Medical Center Groningen. Department of Medical Microbiology and Infection Prevention) ;
Farhat, Maha R. (Massachusetts General Hospital (Boston)) ;
Schaible, Ulrich E. (Leibniz Research Alliance Infections'21) ;
Nübel, Ulrich (Technical University. Braunschweig Integrated Center of Systems Biology) ;
Rupp, Jan (German Center for Infection Research) ;
Steinmann, Joerg (Paracelsus Medical Private University) ;
Niemann, Stefan (Leibniz Research Alliance Infections'21) ;
Kohl, Thomas A. (German Center for Infection Research)
Recent studies portend a rising global spread and adaptation of human- or healthcare-associated pathogens. Here, we analyse an international collection of the emerging, multidrug-resistant, opportunistic pathogen Stenotrophomonas maltophilia from 22 countries to infer population structure and clonality at a global level. [...]
2020 - 10.1038/s41467-020-15123-0
Nature communications, Vol. 11 (April 2020) , art. 2044
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3.
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16 p, 3.0 MB |
The Pseudomonas aeruginosa substrate-binding protein Ttg2D functions as a general glycerophospholipid transporter across the periplasm
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Yero, Daniel (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Díaz-Lobo, Mireia (Institut de Recerca Biomèdica) ;
Costenaro, Lionel (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Conchillo-Solé, Oscar (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Mayo, Adrià (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Ferrer-Navarro, Mario (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Vilaseca, Marta (Institut de Recerca Biomèdica) ;
Gibert, Isidre (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí")
In Pseudomonas aeruginosa, Ttg2D is the soluble periplasmic phospholipid-binding component of an ABC transport system thought to be involved in maintaining the asymmetry of the outer membrane. Here we use the crystallographic structure of Ttg2D at 2. [...]
2021 - 10.1038/s42003-021-01968-8
Communications Biology, Vol. 4 (April 2021) , art. 448
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4.
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11 p, 1.9 MB |
Effect of Oxidative Damage on the Stability and Dimerization of Superoxide Dismutase 1
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Petrov, Drazen (University of Vienna. Department of Structural and Computational Biology) ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Zagrovic, Bojan (University of Vienna. Department of Structural and Computational Biology)
During their life cycle, proteins are subject to different modifications involving reactive oxygen species. Such oxidative damage to proteins may lead to the formation of insoluble aggregates and cytotoxicity and is associated with age-related disorders including neurodegenerative diseases, cancer, and diabetes. [...]
2016 - 10.1016/j.bpj.2016.02.037
Biophysical Journal, Vol. 110, Issue 7 (April 2016) , p. 1499-1509
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5.
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11 p, 247.4 KB |
HLA and microtubule-associated protein tau H1 haplotype associations in anti-IgLON5 disease
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Gaig, Carles (Hospital Clínic i Provincial de Barcelona) ;
Ercilla, Guadalupe (Hospital Clínic i Provincial de Barcelona) ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Ezquerra, Mario (Institut d'Investigacions Biomèdiques August Pi i Sunyer) ;
Fernández-Santiago, Rubén (Institut d'Investigacions Biomèdiques August Pi i Sunyer) ;
Palou, Eduard (Hospital Clínic i Provincial de Barcelona) ;
Sabater, Lidia (Institut d'Investigacions Biomèdiques August Pi i Sunyer) ;
Höftberger, Romana (Medical University of Vienna) ;
Heidbreder, Anna (University Hospital Muenster (Alemanya)) ;
Högl, Birgit (Medical University of Innsbruck) ;
Iranzo, Alex (Hospital Clínic i Provincial de Barcelona) ;
Santamaria, Joan (Hospital Clínic i Provincial de Barcelona) ;
Dalmau, Josep (Institut d'Investigacions Biomèdiques August Pi i Sunyer) ;
Graus Ribas, Francesc (Institut d'Investigacions Biomèdiques August Pi i Sunyer)
We investigated the associations with HLA and microtubule-associated protein tau (MAPT) H1 haplotype in anti-IgLON5 disease, a recently identified disorder characterized by gait instability, brainstem dysfunction, and a prominent sleep disorder in association with IgLON5 antibodies and pathologic findings of a novel neuronal-specific tauopathy. [...]
2019 - 10.1212/NXI.0000000000000605
Neurology® neuroimmunology & neuroinflammation, Vol. 6, issue 6 (Nov. 2019)
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6.
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14 p, 3.3 MB |
Interaction of camel Lactoferrin derived peptides with DNA : a molecular dynamics study
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Pirkhezranian, Zana (Ferdowsi University of Mashhad. Department of Animal Science) ;
Tahmoorespur, Mojtaba. (Ferdowsi University of Mashhad. Department of Animal Science) ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Monhemi, Hassan (University of Neyshabur. Department of Chemistry) ;
Sekhavati, Mohammad Hadi (Ferdowsi University of Mashhad. Department of Animal Science)
Background: lactoferrampin (LFampin), Lactoferricin (LFcin), and LFchimera are three well-known antimicrobial peptides derived from Lactoferrin and proposed as alternatives for antibiotics. Although the intracellular activity of these peptides has been previously demonstrated, their mode of action is not yet fully understood. [...]
2020 - 10.1186/s12864-020-6458-7
BMC genomics, Vol. 21 (2020) , art. 60
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7.
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4 p, 2.2 MB |
The fusogenic peptide HA2 impairs selectivity of CXCR4-targeted protein nanoparticles
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Sánchez García, Laura (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Serna Romero, Naroa (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Mattanovich, M. (University of Natural Resources and Life Sciences. Department of Biotechnology) ;
Cazzanelli, P. (University of Natural Resources and Life Sciences. Department of Biotechnology) ;
Sánchez Chardi, Alejandro (Universitat Autònoma de Barcelona. Servei de Microscòpia) ;
Conchillo-Solé, Oscar (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Cortés, Francisco (Universitat Autònoma de Barcelona. Servei de Cultius Cel·lulars, Producció d'Anticossos i Citometria) ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Unzueta Elorza, Ugutz (Institut d'Investigació Biomèdica Sant Pau) ;
Mangues, Ramon (Institut d'Investigació Biomèdica Sant Pau) ;
Villaverde Corrales, Antonio (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Vázquez Gómez, Esther (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Universitat Autònoma de Barcelona
We demonstrate here that the genetic incorporation of the fusogenic peptide HA2 into a CXCR4-targeted protein nanoparticle dramatically reduces the specificity of the interaction between nanoparticles and cell receptors, a factor to be considered when designing tumor-homing drug vehicles displaying endosomal-escape agents. [...]
2017 - 10.1039/c6cc09900a
Chemical communications, Vol. 53, issue 33 (April 2017) , p. 4565-4568
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8.
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10 p, 1.4 MB |
Heterogeneous colistin-resistance phenotypes coexisting in stenotrophomonas maltophiliaisolates influence colistin susceptibility testing
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Martínez-Servat, Sònia (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Yero, Daniel (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Huedo Moreno, Pol (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Marquez, Roser (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Molina, Gara (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Gibert, Isidre (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia)
The polymyxin antibiotic colistin shows in vitro activity against Stenotrophomonas maltophilia. However, an increased incidence of colistin-resistant isolates has been recently observed. In addition, in vitro evaluation of colistin susceptibility for this organism has been problematic. [...]
2018 - 10.3389/fmicb.2018.02871
Frontiers in microbiology, Vol. 9 (Nov. 2018) , art. 2871
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9.
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45 p, 777.6 KB |
Aggregation-prone peptides modulate activity of bovine interferon gamma released from naturally occurring protein nanoparticles
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Carratalá, José Vicente (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Cano-Garrido, Olivia (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Sánchez, Julieta María (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Membrado, Cristina (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Pérez, Eudald (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Conchillo-Solé, Oscar (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Sánchez Chardi, Alejandro (Universitat Autònoma de Barcelona. Servei de Microscòpia) ;
Villaverde Corrales, Antonio (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Arís i Giralt, Anna (Institut de Recerca i Tecnologia Agroalimentàries) ;
Garcia-Fruitos, Elena (Institut de Recerca i Tecnologia Agroalimentàries) ;
Ferrer-Miralles, Neus (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí")
Efficient protocols for the production of recombinant proteins are indispensable for the development of the biopharmaceutical sector. Accumulation of recombinant proteins in naturally-occurring protein aggregates is detrimental to biopharmaceutical development. [...]
2020 - 10.1016/j.nbt.2020.02.001
New Biotechnolgy, Vol. 57 (July 2020) , p. 11-19
2 documents
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10.
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14 p, 7.6 MB |
BPSL1626 : reverse and structural vaccinology reveal a novel candidate for vaccine design against Burkholderia pseudomallei
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Capelli, Riccardo (Center for Complexity and Biosystems and Dipartimento di Fisica, Università degli Studi di Milano) ;
Peri, Claudio (Consiglio Nazionale delle Ricerche. Istituto di Chimica del Riconoscimento Molecolare) ;
Villa, Riccardo (Department of Biosciences, Università degli Studi di Milano) ;
Nithichanon, Arnone (Khon Kaen University. Centre for Research and Development of Medical Diagnostic Laboratories) ;
Conchillo-Solé, Oscar (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Yero, Daniel (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Gagni, Paola (Istituto di Chimica del Riconoscimento Molecolare, Consiglio Nazionale delle Ricerche) ;
Chiari, Marcella (Istituto di Chimica del Riconoscimento Molecolare, Consiglio Nazionale delle Ricerche) ;
Lertmemongkolchai, Ganjana (Center for Research and Development of Medical Diagnostic Laboratories (CMDL), Faculty of Associated Medical Sciences, Khon Kaen University) ;
Cretich, Marina (Istituto di Chimica del Riconoscimento Molecolare, Consiglio Nazionale delle Ricerche) ;
Daura i Ribera, Xavier (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Bolognesi, Martino (Università degli Studi di Milano. Centro di Eccellenza Interdisciplinare Materiali e Interfacce Nanostrutturati) ;
Colombo, Giorgio (Consiglio Nazionale delle Ricerche. Istituto di Chimica del Riconoscimento Molecolare) ;
Gourlay, Louise J. (Università degli Studi di Milano. Centro di Eccellenza Interdisciplinare Materiali e Interfacce Nanostrutturati)
Due to significant advances in computational biology, protein prediction, together with antigen and epitope design, have rapidly moved from conventional methods, based on experimental approaches, to in silico-based bioinformatics methods. [...]
2018 - 10.3390/antib7030026
Antibodies, Vol. 7 (2018) , p. 1-14
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