Computational Biology

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Showing 31 - 60 results of 180

2022

Optimizing Dosage-Specific Treatments in a Multi-Scale Model of a Tumor

Frontiers in Molecular Biosciences

M. Ponce-de-Leon, A. Montagud, C. Akasiadis, J. Schreiber, T. Ntiniakou, and A. Valencia
Design and methodological characteristics of studies using observational routinely collected health data for investigating the link between cancer and neurodegenerative diseases: Protocol for a meta-research study

BMJ Open

F. Catalá-López, J. A. Driver, M. J. Page, B. Hutton, M. Ridao, C. Berrozpe-Villabona, A. Alonso-Arroyo, C. A. Fraga-Medín, E. Bernal-Delgado, A. Valencia, and R. Tabarés-Seisdedos
Heterogeneous Infectivity and Pathogenesis of SARS-CoV-2 Variants Beta, Delta and Omicron in Transgenic K18-hACE2 and Wildtype Mice

Frontiers in Microbiology

F. Tarrés-Freixas, B. Trinité, A. Pons-Grífols, M. Romero-Durana, E. Riveira-Muñoz, C. Ávila-Nieto, M. Pérez, E. Garcia-Vidal, D. Perez-Zsolt, J. Muñoz-Basagoiti, D. Raïch-Regué, N. Izquierdo-Useros, C. Andrés, A. Antón, T. Pumarola, I. Blanco, M. Noguera-Julian, V. Guallar, R. Lepore, A. Valencia, V. Urrea, J. Vergara-Alert, B. Clotet, E. Ballana, J. Carrillo, J. Segalés, and J. Blanco
Evaluating the policy of closing bars and restaurants in Cataluña and its effects on mobility and COVID19 incidence

Scientific Reports

M. Smith, M. Ponce-de-Leon, and A. Valencia
Mortality in Persons With Autism Spectrum Disorder or Attention-Deficit/Hyperactivity Disorder

JAMA Pediatrics

F. Catalá-López, B. Hutton, M. J. Page, J. A. Driver, M. Ridao, A. Alonso-Arroyo, A. Valencia, D. Macías Saint-Gerons, and R. Tabarés-Seisdedos
Clinical course impacts early kinetics,magnitude, and amplitude of SARS-CoV-2 neutralizing antibodies beyond 1 year after infection

Cell Reports Medicine

E. Pradenas, B. Trinité, V. Urrea, S. Marfil, F. Tarrés-Freixas, R. Ortiz, C. Rovirosa, J. Rodon, J. Vergara-Alert, and J. Segalés
Clinical course impacts early kinetics,magnitude, and amplitude of SARS-CoV-2 neutralizing antibodies beyond 1 year after infection

Cell Reports Medicine

E. Pradenas, B. Trinité, V. Urrea, S. Marfil, F. Tarrés-Freixas, R. Ortiz, C. Rovirosa, J. Rodon, J. Vergara-Alert, J. Segalés, V. Guallar, A. Valencia, N. Izquierdo-Useros, M. Noguera-Julian, J. Carrillo, R. Paredes, L. Mateu, A. Chamorro, R. Toledo, M. Massanella, B. Clotet, and J. Blanco
Detection of oncogenic and clinically actionable mutations in cancer genomes critically depends on variant calling tools

Bioinformatics

C. A. Garcia-Prieto, F. Martínez-Jiménez, A. Valencia, and E. Porta-Pardo
The structural coverage of the human proteome before and after AlphaFold

PLoS computational biology

E. Porta-Pardo, V. Ruiz-Serra, S. Valentini, and A. Valencia
Sex and Gender Bias in Technology and Artificial Intelligence: Biomedicine and Healthcare Applications

Elsevier Academic Press

D. Cirillo, S. Catuara-Solarz, and E. Guney
Digital biomarkers and sex impacts in Alzheimer’s disease management — potential utility for innovative 3P medicine approach

EPMA Journal

R. L. Harms, A. Ferrari, I. B. Meier, J. Martinkova, E. Santus, N. Marino, D. Cirillo, S. Mellino, S. Catuara Solarz, I. Tarnanas, C. Szoeke, J. Hort, A. Valencia, M. Teresa Ferretti, A. Seixas, and A. Santuccion Chadha
Patient-specific Boolean models of signalling networks guide personalised treatments

eLife

A. Montagud, J. Béal, L. Tobalina, P. Traynard, V. Subramanian, B. Szalai, R. Alföldi, L. Puskás, A. Valencia, E. Barillot, J. Saez-Rodriguez, and L. Calzone

2021

FrustratometeR: an R-package to compute local frustration in protein structures, point mutants and MD simulationsAbstractSummaryAvailability and implementationSupplementary information

Bioinformatics

A. O. Rausch, M. I. Freiberger, C. O. Leonetti, D. M. Luna, L. G. Radusky, P. G. Wolynes, D. U. Ferreiro, and G. R. Parra
BiologyBioFVM-X: An MPI+OpenMP 3-D Simulator for Biological Systems

G. Saxena, M. Ponce-de-Leon, A. Montagud, D. Vicente Dorca, and A. Valencia
Assessing the accuracy of contact and distance predictions in CASP14

Proteins: Structure, Function, and Bioinformatics

V. Ruiz‐Serra, C. Pontes, E. Milanetti, A. Kryshtafovych, R. Lepore, and A. Valencia
Pigs are not susceptible to SARS‐CoV‐2 infection but are a model for viral immunogenicity studies

Transboundary and Emerging Diseases

J. Vergara‐Alert, J. Rodon, J. Carrillo, N. Te, N. Izquierdo‐Useros, M. Luisa Rodr de la Concepción, C. Ávila‐Nieto, V. Guallar, A. Valencia, G. Cantero, J. Blanco, B. Clotet, A. Bensaid, and J. Segalés
Llibre blanc sobre la Intel·ligència Artificial aplicada a la salut

CIDAI-LlibreBlanc-2021-02

F. Miralles, V. Ribas, C. Gallego, J. Guanyabens, M. Valls, D. Cirillo, A. Jené, C. Sierra, D. Gil, C. Sanchez, X. Llopis, K. Gisbert, and A. Vellido
Perspectives on emerging technologies, personalised medicine, and clinical research for cancer control in Latin America and the Caribbean

The Lancet Oncology

G. Werutsky, C. H. Barrios, A. F. Cardona, A. Albergaria, A. Valencia, C. G. Ferreira, C. Rolfo, E. de Azambuja, G. A. Rabinovich, G. Sposetti, O. Arrieta, R. Dienstmann, T. F. Rebelatto, V. Denninghoff, V. Aran, and E. Cazap
Unraveling the molecular basis of host cell receptor usage in SARS-CoV-2 and other human pathogenic β-CoVs

Computational and Structural Biotechnology Journal

C. Pontes, V. Ruiz-Serra, R. Lepore, and A. Valencia
BioFVM-X: An MPI+OpenMP 3-D Simulator for Biological Systems

G. Saxena, M. Ponce-de-Leon, A. Montagud, D. Vicente Dorca, and A. Valencia
STAG2 loss-of-function affects short-range genomic contacts and modulates the basal-luminal transcriptional program of bladder cancer cells

Nucleic Acids Research

L. Richart, E. Lapi, V. Pancaldi, M. Cuenca-Ardura, E. Carrillo-d Pau, M. Madrid-Mencía, H. Neyret-Kahn, F. Radvanyi, J. Antonio Rodríguez, Y. Cuartero, F. Serra, F. Le Dily, A. Valencia, M. A. Marti-Renom, and F. X. Real
Computational analysis of sense-antisense chimeric transcripts reveals their potential regulatory features and the landscape of expression in human cells

NAR Genomics and Bioinformatics

S. Mukherjee, R. Detroja, D. Balamurali, E. Matveishina, Y. A. Medvedeva, A. Valencia, A. Gorohovski, and M. Frenkel-Morgenstern
Transcriptomic and Genetic Associations between Alzheimer’s Disease, Parkinson’s Disease, and Cancer

Cancers

J. Forés-Martos, C. Boullosa, D. Rodrigo-Domínguez, J. Sánchez-Valle, B. Suay-García, J. Climent, A. Falcó, A. Valencia, J. Anton Puig-Butillé, S. Puig, and R. Tabarés-Seisdedos
Protection against reinfection with D614- or G614-SARS-CoV-2 isolates in golden Syrian hamster

Emerging Microbes & Infections

M. Brustolin, J. Rodon, M. Luisa Rodr de la Concepción, C. Ávila-Nieto, G. Cantero, M. Pérez, N. Te, M. Noguera-Julian, V. Guallar, A. Valencia, N. Roca, N. Izquierdo-Useros, J. Blanco, B. Clotet, A. Bensaid, J. Carrillo, J. Vergara-Alert, and J. Segalés
Pigs are not susceptible to SARS‐CoV‐2 infection but are a model for viral immunogenicity studies

Transboundary and Emerging Diseases

J. Vergara‐Alert, J. Rodon, J. Carrillo, N. Te, N. Izquierdo‐Useros, M. Luisa Rodr de la Concepción, C. Ávila‐Nieto, V. Guallar, A. Valencia, G. Cantero, J. Blanco, B. Clotet, A. Bensaid, and J. Segalés
Identification of Plitidepsin as Potent Inhibitor of SARS-CoV-2-Induced Cytopathic Effect After a Drug

Frontiers in Pharmacology

J. Rodon, J. Muñoz-Basagoiti, D. Perez-Zsolt, M. Noguera-Julian, R. Paredes, L. Mateu, C. Quiñones, C. Perez, I. Erkizia, I. Blanco, A. Valencia, V. Guallar, J. Carrillo, J. Blanco, J. Segalés, B. Clotet, J. Vergara-Alert, and N. Izquierdo-Useros
SARS-CoV-2 infection elicits a rapid neutralizing antibody response that correlates with disease severity

Scientific Reports

B. Trinité, F. Tarrés-Freixas, J. Rodon, E. Pradenas, V. Urrea, S. Marfil, M. Luisa Rodr de la Concepción, C. Ávila-Nieto, C. Aguilar-Gurrieri, A. Barajas, R. Ortiz, R. Paredes, L. Mateu, A. Valencia, V. Guallar, L. Ruiz, E. Grau, M. Massanella, J. Puig, A. Chamorro, N. Izquierdo-Useros, J. Segalés, B. Clotet, J. Carrillo, J. Vergara-Alert, and J. Blanco
Stable neutralizing antibody levels 6 months after mild and severe COVID-19 episodes

Med

E. Pradenas, B. Trinité, V. Urrea, S. Marfil, C. Ávila-Nieto, M. Luisa Rodr de la Concepción, F. Tarrés-Freixas, S. Pérez-Yanes, C. Rovirosa, E. Ainsua-Enrich, J. Rodon, J. Vergara-Alert, J. Segalés, V. Guallar, A. Valencia, N. Izquierdo-Useros, R. Paredes, L. Mateu, A. Chamorro, M. Massanella, J. Carrillo, B. Clotet, and J. Blanco
Impact of Transcriptome and Gut Microbiome on the Response of HIV-1 Infected Individuals to a Dendritic Cell-Based HIV Therapeutic Vaccine

Vaccines

R. Pastor-Ibáñez, F. Díez-Fuertes, S. Sánchez-Palomino, J. Alcamí, M. Plana, D. Torrents, L. Leal, and F. García
Germline genetic contribution to the immune landscape of cancer

Immunity

R. W. Sayaman, M. Saad, V. Thorsson, D. Hu, W. Hendrickx, J. Roelands, E. Porta-Pardo, Y. Mokrab, F. Farshidfar, T. Kirchhoff, R. F. Sweis, O. F. Bathe, C. Heimann, M. J. Campbell, C. Stretch, S. Huntsman, R. E. Graff, N. Syed, L. Radvanyi, S. Shelley, D. Wolf, F. M. Marincola, M. Ceccarelli, J. Galon, E. Ziv, and D. Bedognetti

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