Crosstalk between Metabolite Production and Signaling Activity in Breast Cancer

por Çubuk, Cankut, Loucera, Carlos, Peña-Chilet, María, Dopazo, Joaquin
Publicado 2023

Mechanistic Models of Signaling Pathways Reveal the Drug Action Mechanisms behind Gender-Specific Gene Expression for Cancer Treatments

por Çubuk, Cankut, Can, Fatma E., Peña-Chilet, María, Dopazo, Joaquín
Publicado 2020

Models of cell signaling uncover molecular mechanisms of high-risk neuroblastoma and predict disease outcome

por Hidalgo, Marta R., Amadoz, Alicia, Çubuk, Cankut, Carbonell-Caballero, José, Dopazo, Joaquín
Publicado 2018

A comparison of mechanistic signaling pathway activity analysis methods

por Amadoz, Alicia, Hidalgo, Marta R, Çubuk, Cankut, Carbonell-Caballero, José, Dopazo, Joaquín
Publicado 2018

High throughput estimation of functional cell activities reveals disease mechanisms and predicts relevant clinical outcomes

por Hidalgo, Marta R., Cubuk, Cankut, Amadoz, Alicia, Salavert, Francisco, Carbonell-Caballero, José, Dopazo, Joaquin
Publicado 2016

Chronic subordination stress selectively downregulates the insulin signaling pathway in liver and skeletal muscle but not in adipose tissue of male mice

por Sanghez, Valentina, Cubuk, Cankut, Sebastián-Leon, Patricia, Carobbio, Stefania, Dopazo, Joaquin, Vidal-Puig, Antonio, Bartolomucci, Alessandro
Publicado 2016

Actionable pathways: interactive discovery of therapeutic targets using signaling pathway models

por Salavert, Francisco, Hidago, Marta R., Amadoz, Alicia, Çubuk, Cankut, Medina, Ignacio, Crespo, Daniel, Carbonell-Caballero, Jose, Dopazo, Joaquín
Publicado 2016

Reference genome assessment from a population scale perspective: an accurate profile of variability and noise

por Carbonell-Caballero, José, Amadoz, Alicia, Alonso, Roberto, Hidalgo, Marta R, Çubuk, Cankut, Conesa, David, López-Quílez, Antonio, Dopazo, Joaquín
Publicado 2017

Transcriptomic and proteomic profiling of Na(V)1.8-expressing mouse nociceptors

por Schmidt, Manuela, Sondermann, Julia Regina, Gomez-Varela, David, Çubuk, Cankut, Millet, Queensta, Lewis, Myles J., Wood, John N., Zhao, Jing
Publicado 2022

Differential metabolic activity and discovery of therapeutic targets using summarized metabolic pathway models

por Çubuk, Cankut, Hidalgo, Marta R., Amadoz, Alicia, Rian, Kinza, Salavert, Francisco, Pujana, Miguel A., Mateo, Francesca, Herranz, Carmen, Carbonell-Caballero, Jose, Dopazo, Joaquín
Publicado 2019

Genome-scale mechanistic modeling of signaling pathways made easy: A bioconductor/cytoscape/web server framework for the analysis of omic data

por Rian, Kinza, Hidalgo, Marta R., Çubuk, Cankut, Falco, Matias M., Loucera, Carlos, Esteban-Medina, Marina, Alamo-Alvarez, Inmaculada, Peña-Chilet, María, Dopazo, Joaquín
Publicado 2021

Accelerated phosphatidylcholine turnover in macrophages promotes adipose tissue inflammation in obesity

por Petkevicius, Kasparas, Virtue, Sam, Bidault, Guillaume, Jenkins, Benjamin, Çubuk, Cankut, Morgantini, Cecilia, Aouadi, Myriam, Dopazo, Joaquin, Serlie, Mireille J, Koulman, Albert, Vidal-Puig, Antonio
Publicado 2019

Mechanistic modeling of the SARS-CoV-2 disease map

por Rian, Kinza, Esteban-Medina, Marina, Hidalgo, Marta R., Çubuk, Cankut, Falco, Matias M., Loucera, Carlos, Gunyel, Devrim, Ostaszewski, Marek, Peña-Chilet, María, Dopazo, Joaquín
Publicado 2021

Stress-induced activation of brown adipose tissue prevents obesity in conditions of low adaptive thermogenesis

por Razzoli, Maria, Frontini, Andrea, Gurney, Allison, Mondini, Eleonora, Cubuk, Cankut, Katz, Liora S., Cero, Cheryl, Bolan, Patrick J., Dopazo, Joaquin, Vidal-Puig, Antonio, Cinti, Saverio, Bartolomucci, Alessandro
Publicado 2015

Combining evidence for and against pathogenicity for variants in cancer susceptibility genes: CanVIG-UK consensus recommendations

por Garrett, Alice, Durkie, Miranda, Callaway, Alison, Burghel, George J, Robinson, Rachel, Drummond, James, Torr, Bethany, Cubuk, Cankut, Berry, Ian R, Wallace, Andrew J, Ellard, Sian, Eccles, Diana M, Tischkowitz, Marc, Hanson, Helen, Turnbull, Clare
Publicado 2021

Role of synovial fibroblast subsets across synovial pathotypes in rheumatoid arthritis: a deconvolution analysis

por Micheroli, Raphael, Elhai, Muriel, Edalat, Sam, Frank-Bertoncelj, Mojca, Bürki, Kristina, Ciurea, Adrian, MacDonald, Lucy, Kurowska-Stolarska, Mariola, Lewis, Myles J, Goldmann, Katriona, Cubuk, Cankut, Kuret, Tadeja, Distler, Oliver, Pitzalis, Costantino, Ospelt, Caroline
Publicado 2022

Quantifying prediction of pathogenicity for within-codon concordance (PM5) using 7541 functional classifications of BRCA1 and MSH2 missense variants

por Loong, Lucy, Cubuk, Cankut, Choi, Subin, Allen, Sophie, Torr, Beth, Garrett, Alice, Loveday, Chey, Durkie, Miranda, Callaway, Alison, Burghel, George J., Drummond, James, Robinson, Rachel, Berry, Ian R., Wallace, Andrew, Eccles, Diana M., Tischkowitz, Marc, Ellard, Sian, Ware, James S., Hanson, Helen, Turnbull, Clare
Publicado 2022

Babelomics 5.0: functional interpretation for new generations of genomic data

por Alonso, Roberto, Salavert, Francisco, Garcia-Garcia, Francisco, Carbonell-Caballero, Jose, Bleda, Marta, Garcia-Alonso, Luz, Sanchis-Juan, Alba, Perez-Gil, Daniel, Marin-Garcia, Pablo, Sanchez, Ruben, Cubuk, Cankut, Hidalgo, Marta R., Amadoz, Alicia, Hernansaiz-Ballesteros, Rosa D., Alemán, Alejandro, Tarraga, Joaquin, Montaner, David, Medina, Ignacio, Dopazo, Joaquin
Publicado 2015

The effects of death and post-mortem cold ischemia on human tissue transcriptomes

por Ferreira, Pedro G., Muñoz-Aguirre, Manuel, Reverter, Ferran, Sá Godinho, Caio P., Sousa, Abel, Amadoz, Alicia, Sodaei, Reza, Hidalgo, Marta R., Pervouchine, Dmitri, Carbonell-Caballero, Jose, Nurtdinov, Ramil, Breschi, Alessandra, Amador, Raziel, Oliveira, Patrícia, Çubuk, Cankut, Curado, João, Aguet, François, Oliveira, Carla, Dopazo, Joaquin, Sammeth, Michael, Ardlie, Kristin G., Guigó, Roderic
Publicado 2018

Rituximab versus tocilizumab in rheumatoid arthritis: synovial biopsy-based biomarker analysis of the phase 4 R4RA randomized trial

por Rivellese, Felice, Surace, Anna E. A., Goldmann, Katriona, Sciacca, Elisabetta, Çubuk, Cankut, Giorli, Giovanni, John, Christopher R., Nerviani, Alessandra, Fossati-Jimack, Liliane, Thorborn, Georgina, Ahmed, Manzoor, Prediletto, Edoardo, Church, Sarah E., Hudson, Briana M., Warren, Sarah E., McKeigue, Paul M., Humby, Frances, Bombardieri, Michele, Barnes, Michael R., Lewis, Myles J., Pitzalis, Costantino
Publicado 2022