Multidimensional gene set analysis of genomic data. by David Montaner, Joaquín Dopazo

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Assessing the biological significance of gene expression signatures and co-expression modules by studying their network properties. by Pablo Minguez, Joaquin Dopazo

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Editorial: Critical assessment of massive data analysis (CAMDA) annual conference 2021 by Paweł P. Łabaj, Joaquin Dopazo, Joaquin Dopazo, Wenzhong Xiao, Wenzhong Xiao, David P. Kreil

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Positive selection, relaxation, and acceleration in the evolution of the human and chimp genome. by Leonardo Arbiza, Joaquín Dopazo, Hernán Dopazo

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Natural selection on functional modules, a genome-wide analysis. by François Serra, Leonardo Arbiza, Joaquín Dopazo, Hernán Dopazo

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Crosstalk between Metabolite Production and Signaling Activity in Breast Cancer by Cankut Çubuk, Carlos Loucera, María Peña-Chilet, Joaquin Dopazo

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Deciphering Genomic Heterogeneity and the Internal Composition of Tumour Activities through a Hierarchical Factorisation Model by José Carbonell-Caballero, Antonio López-Quílez, David Conesa, Joaquín Dopazo

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Towards a metagenomics machine learning interpretable model for understanding the transition from adenoma to colorectal cancer by Carlos S. Casimiro-Soriguer, Carlos Loucera, María Peña-Chilet, Joaquin Dopazo

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Extensive translatome remodeling during ER stress response in mammalian cells. by Iván Ventoso, Alex Kochetov, David Montaner, Joaquín Dopazo, Javier Santoyo

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Mechanistic Models of Signaling Pathways Reveal the Drug Action Mechanisms behind Gender-Specific Gene Expression for Cancer Treatments by Cankut Çubuk, Fatma E. Can, María Peña-Chilet, Joaquín Dopazo

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Integrating pathway knowledge with deep neural networks to reduce the dimensionality in single-cell RNA-seq data by Pelin Gundogdu, Carlos Loucera, Inmaculada Alamo-Alvarez, Joaquin Dopazo, Isabel Nepomuceno

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SigPrimedNet: A Signaling-Informed Neural Network for scRNA-seq Annotation of Known and Unknown Cell Types by Pelin Gundogdu, Inmaculada Alamo, Isabel A. Nepomuceno-Chamorro, Joaquin Dopazo, Carlos Loucera

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Models of cell signaling uncover molecular mechanisms of high-risk neuroblastoma and predict disease outcome by Marta R. Hidalgo, Alicia Amadoz, Cankut Çubuk, José Carbonell-Caballero, Joaquín Dopazo

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A Pan-Cancer Catalogue of Cancer Driver Protein Interaction Interfaces. by Eduard Porta-Pardo, Luz Garcia-Alonso, Thomas Hrabe, Joaquin Dopazo, Adam Godzik

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Antibiotic resistance and metabolic profiles as functional biomarkers that accurately predict the geographic origin of city metagenomics samples by Carlos S. Casimiro-Soriguer, Carlos Loucera, Javier Perez Florido, Daniel López-López, Joaquin Dopazo

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Functional Profiling of Soft Tissue Sarcoma Using Mechanistic Models by Miriam Payá-Milans, María Peña-Chilet, Carlos Loucera, Marina Esteban-Medina, Joaquín Dopazo

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Selection upon genome architecture: conservation of functional neighborhoods with changing genes. by Fátima Al-Shahrour, Pablo Minguez, Tomás Marqués-Bonet, Elodie Gazave, Arcadi Navarro, Joaquín Dopazo

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myKaryoView: a light-weight client for visualization of genomic data. by Rafael C Jimenez, Gustavo A Salazar, Bernat Gel, Joaquin Dopazo, Nicola Mulder, Manuel Corpas

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PyCellBase, an efficient python package for easy retrieval of biological data from heterogeneous sources by Daniel Perez-Gil, Francisco J. Lopez, Joaquin Dopazo, Pablo Marin-Garcia, Augusto Rendon, Ignacio Medina

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Drug repurposing for COVID-19 using machine learning and mechanistic models of signal transduction circuits related to SARS-CoV-2 infection by Carlos Loucera, Marina Esteban-Medina, Kinza Rian, Matías M. Falco, Joaquín Dopazo, María Peña-Chilet

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