Computational Biology

Primary tabs

Showing 31 - 60 results of 171

2022

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
A catalogue of 863 Rett-syndrome-causing MECP2 mutations and lessons learned from data integration

Scientific Data

F. Ehrhart, A. Jacobsen, M. Rigau, M. Bosio, R. Kaliyaperumal, J. F. J. Laros, E. L. Willighagen, A. Valencia, M. Roos, S. Capella-Gutierrez, L. M. G. Curfs, and C. T. Evelo
COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms

Molecular Systems Biology

M. Ostaszewski, A. Niarakis, A. Mazein, I. Kuperstein, R. Phair, A. Orta‐Resendiz, V. Singh, S. Sadat Aghamiri, M. Luis Acencio, E. Glaab, et al.
Systems biology at the giga-scale: Large multiscale models of complex, heterogeneous multicellular systems

Current Opinion in Systems Biology

A. Montagud, M. Ponce-de-Leon, and A. Valencia
BioFVM-X: An MPI+OpenMP 3-D Simulator for Biological Systems

Lecture Notes in Computer Science

G. Saxena, M. Ponce-de-Leon, A. Montagud, D. Vicente Dorca, and A. Valencia
COVID-19 Flow-Maps an open geographic information system on COVID-19 and human mobility for Spain

Scientific Data

M. Ponce De Leon, J. del Valle, J. Maria Fernández, M. Bernardo, D. Cirillo, J. Sánchez-Valle, M. Smith, S. Capella-Gutierrez, T. Gullón, and A. Valencia
DOME: recommendations for supervised machine learning validation in biology

Nature Methods

I. Walsh, D. Fishman, D. Garcia-Gasulla, T. Titma, G. Pollastri, E. Capriotti, R. Casadio, S. Capella-Gutierrez, D. Cirillo, A. Del Conte, A. C. Dimopoulos, V. Dominguez Del Angel, J. Dopazo, P. Fariselli, J. Maria Fernández, F. Huber, A. Kreshuk, T. Lenaerts, P. Luigi Martelli, A. Navarro, P. Ó. Broin, J. Piñero, D. Piovesan, M. Reczko, F. Ronzano, V. Satagopam, C. Savojardo, V. Spiwok, M. Antonio Tangaro, G. Tartari, D. Salgado, A. Valencia, F. Zambelli, J. Harrow, F. E. Psomopoulos, and S. C. E. Tosatto
MAX mutant small-cell lung cancers exhibit impaired activities of MGA-dependent noncanonical polycomb repressive complex

Proceedings of the National Academy of Sciences

P. Llabata, M. Torres-Diz, A. Gomez, L. Tomas-Daza, O. A. Romero, J. Grego-Bessa, P. Llinas-Arias, A. Valencia, M. Esteller, B. M. Javierre, X. Zhang, and M. Sanchez-Cespedes
The multilayer community structure of medulloblastoma

iScience

I. Núñez-Carpintero, M. Petrizzelli, A. Zinovyev, D. Cirillo, and A. Valencia
Artificial Intelligence–Aided Precision Medicine for COVID-19: Strategic Areas of Research and Development

Journal of Medical Internet Research

E. Santus, N. Marino, D. Cirillo, E. Chersoni, A. Montagud, A. Santuccion Chadha, A. Valencia, K. Hughes, and C. Lindvall

Pages