Saez‐Rodriguez, Julio : rechercher sur Z-Library

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1

Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction

Saez-Rodriguez, Julio, Alexopoulos, Leonidas G, Epperlein, Jonathan, Samaga, Regina, Lauffenburger, Douglas A, Klamt, Steffen, Sorger, Peter K

Journal:

Molecular Systems Biology

Année:

2009

Langue:

english

Fichier:

PDF, 1.83 MB

english, 2009

2

Big science and big data in nephrology

Saez-Rodriguez, Julio, Rinschen, Markus M., Floege, Jürgen, Kramann, Rafael

Journal:

Kidney International

Année:

2019

Fichier:

PDF, 1.12 MB

2019

3

Bringing data from curated pathway resources to Cytoscape with OmniPath

Ceccarelli, Francesco, Turei, Denes, Gabor, Attila, Saez-Rodriguez, Julio, Robinson, Peter

Journal:

Année:

2019

Langue:

english

Fichier:

PDF, 245 KB

english, 2019

4

Evaluation of methods for modeling transcription factor sequence specificity

Weirauch, Matthew T, Cote, Atina, Norel, Raquel, Annala, Matti, Zhao, Yue, Riley, Todd R, Saez-Rodriguez, Julio, Cokelaer, Thomas, Vedenko, Anastasia, Talukder, Shaheynoor, Agius, Phaedra, Arvey, Aaro

Journal:

Nature Biotechnology

Année:

2013

Langue:

english

Fichier:

PDF, 2.05 MB

english, 2013

5

Logic-Based Models for the Analysis of Cell Signaling Networks

Morris, Melody K., Saez-Rodriguez, Julio, Sorger, Peter K., Lauffenburger, Douglas A.

Journal:

Année:

2010

Langue:

english

Fichier:

PDF, 2.95 MB

english, 2010

6

Modeling Signaling Networks to Advance New Cancer Therapies

Saez-Rodriguez, Julio, MacNamara, Aidan, Cook, Simon

Journal:

Annual Review of Biomedical Engineering

Année:

2015

Langue:

english

Fichier:

PDF, 946 KB

english, 2015

7

Mechanism-based biomarker discovery

Antoranz, Asier, Sakellaropoulos, Theodore, Saez-Rodriguez, Julio, G. Alexopoulos, Leonidas

Journal:

Drug Discovery Today

Année:

2017

Langue:

english

Fichier:

PDF, 807 KB

english, 2017

8

Alternative models for sharing confidential biomedical data

Guinney, Justin, Saez-Rodriguez, Julio

Journal:

Nature Biotechnology

Année:

2018

Langue:

english

Fichier:

PDF, 283 KB

english, 2018

9

How to find the right drug for each patient? Advances and challenges in pharmacogenomics

Kalamara, Angeliki, Tobalina, Luis, Saez-Rodriguez, Julio

Journal:

Current Opinion in Systems Biology

Année:

2018

Langue:

english

Fichier:

PDF, 1.17 MB

english, 2018

10

Footprint-based functional analysis of multiomic data

Dugourd, Aurelien, Saez-Rodriguez, Julio

Journal:

Current Opinion in Systems Biology

Année:

2019

Langue:

english

Fichier:

PDF, 1.18 MB

english, 2019

11

Patient with resected anaplastic astrocytoma and an image suggestive of relapse

Sonia Maciá Escalante, Álvaro Rodríguez Lescure, José Miguel Segura Ibáñez, Julio Sáez Castán, Carmen Guillén Ponce, Alfredo Carrato Mena

Journal:

Clinical and Translational Oncology

Année:

2006

Langue:

english

Fichier:

PDF, 774 KB

english, 2006

12

Antracofibrosis o antracoestenosis

Julio Gómez-Seco, Irene Pérez-Boal, Jordi Guerrero-González, Feliciano Sáez-Noguero, Iker Fernández-Navamuel, Maria Jesús Rodríguez-Nieto

Journal:

Archivos de Bronconeumología

Année:

2012

Fichier:

PDF, 922 KB

2012

13

A database for animal tuberculosis (mycoDB.es) within the context of the Spanish national programme for eradication of bovine tuberculosis

Sabrina Rodriguez-Campos, Sergio González, Lucía de Juan, Beatriz Romero, Javier Bezos, Carmen Casal, Julio Álvarez, Isabel G. Fernández-de-Mera, Elena Castellanos, Ana Mateos, José L. Sáez-Llorente,

Journal:

Infection, Genetics and Evolution

Année:

2012

Fichier:

PDF, 1.12 MB

2012

14

High spoligotype diversity within a Mycobacterium bovis population: Clues to understanding the demography of the pathogen in Europe

Sabrina Rodríguez, Beatriz Romero, Javier Bezos, Lucía de Juan, Julio Álvarez, Elena Castellanos, Nuria Moya, Francisco Lozano, Sergio González, José Luis Sáez-Llorente, Ana Mateos, Lucas Domínguez, A

Journal:

Veterinary Microbiology

Année:

2010

Langue:

english

Fichier:

PDF, 251 KB

english, 2010

15

A domain-oriented approach to the reduction of combinatorial complexity in signal transduction networks

Holger Conzelmann, Julio Saez-Rodriguez, Thomas Sauter, Boris N Kholodenko, Ernst D Gilles

Journal:

BMC Bioinformatics

Année:

2006

Langue:

english

Fichier:

PDF, 401 KB

english, 2006

16

Visual setup of logical models of signaling and regulatory networks with ProMoT

Julio Saez-Rodriguez, Sebastian Mirschel, Rebecca Hemenway, Steffen Klamt, Ernst Dieter Gilles, Martin Ginkel

Journal:

BMC Bioinformatics

Année:

2006

Langue:

english

Fichier:

PDF, 477 KB

english, 2006

17

A methodology for the structural and functional analysis of signaling and regulatory networks

Steffen Klamt, Julio Saez-Rodriguez, Jonathan A Lindquist, Luca Simeoni, Ernst D Gilles

Journal:

BMC Bioinformatics

Année:

2006

Langue:

english

Fichier:

PDF, 1.20 MB

english, 2006

18

Structural and functional analysis of cellular networks withCellNetAnalyzer

Steffen Klamt, Julio Saez-Rodriguez, Ernst D Gilles

Journal:

BMC Systems Biology

Année:

2007

Langue:

english

Fichier:

PDF, 811 KB

english, 2007

19

Transforming Boolean models to continuous models: methodology and application to T-cell receptor signaling

Dominik M Wittmann, Jan Krumsiek, Julio Saez-Rodriguez, Douglas A Lauffenburger, Steffen Klamt, Fabian J Theis

Journal:

BMC Systems Biology

Année:

2009

Langue:

english

Fichier:

PDF, 1.75 MB

english, 2009

20

Anthracofibrosis or Anthracostenosis

Julio Gómez-Seco, Irene Pérez-Boal, Jordi Guerrero-González, Feliciano Sáez-Noguero, Iker Fernández-Navamuel, Maria Jesús Rodríguez-Nieto

Journal:

Archivos de Bronconeumología (English Edition)

Année:

2012

Langue:

english

Fichier:

PDF, 868 KB

english, 2012

21

Eradication of bovine tuberculosis at a herd-level in Madrid, Spain: study of within-herd transmission dynamics over a 12 year period

Julio Alvarez, Andres M Perez, Javier Bezos, Carmen Casal, Beatriz Romero, Sabrina Rodriguez-Campos, Jose L Saez-Llorente, Rosa Diaz, Jesus Carpintero, Lucia de Juan, Lucas Domínguez

Journal:

BMC Veterinary Research

Année:

2012

Langue:

english

Fichier:

PDF, 230 KB

english, 2012

22

Creating and analyzing pathway and protein interaction compendia for modelling signal transduction networks

Daniel C Kirouac, Julio Saez-Rodriguez, Jennifer Swantek, John M Burke, Douglas A Lauffenburger, Peter K Sorger

Journal:

BMC Systems Biology

Année:

2012

Langue:

english

Fichier:

PDF, 1.03 MB

english, 2012

23

Transcriptional data: a new gateway to drug repositioning?

Iorio, Francesco, Rittman, Timothy, Ge, Hong, Menden, Michael, Saez-Rodriguez, Julio

Journal:

Drug Discovery Today

Année:

2013

Langue:

english

Fichier:

PDF, 571 KB

english, 2013

24

Fuzzy Logic Analysis of Kinase Pathway Crosstalk in TNF/EGF/Insulin-Induced Signaling

Aldridge, Bree B., Saez-Rodriguez, Julio, Muhlich, Jeremy L., Sorger, Peter K., Lauffenburger, Douglas A., Rao, Christopher

Journal:

PLoS Computational Biology

Année:

2009

Langue:

english

Fichier:

PDF, 1.41 MB

english, 2009

25

CySBGN: A Cytoscape plug-in to integrate SBGN maps

Emanuel Gonçalves, Martijn van Iersel, Julio Saez-Rodriguez

Journal:

BMC Bioinformatics

Année:

2013

Langue:

english

Fichier:

PDF, 487 KB

english, 2013

26

Network based elucidation of drug response: from modulators to targets

Iorio, Francesco, Saez-Rodriguez, Julio, Bernardo, Diego di

Journal:

BMC Systems Biology

Année:

2013

Langue:

english

Fichier:

PDF, 218 KB

english, 2013

27

MEIGO: an open-source software suite based on metaheuristics for global optimization in systems biology and bioinformatics

Egea, Jose A, Henriques, David, Cokelaer, Thomas, Villaverde, Alejandro F, MacNamara, Aidan, Danciu, Diana-Patricia, Banga, Julio R, Saez-Rodriguez, Julio

Journal:

BMC Bioinformatics

Année:

2014

Langue:

english

Fichier:

PDF, 1.44 MB

english, 2014

28

[Advances in Intelligent Systems and Computing] 8th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2014) Volume 294 ||

Saez-Rodriguez, Julio, Rocha, Miguel P., Fdez-Riverola, Florentino, De Paz Santana, Juan F.

Année:

2014

Langue:

english

Fichier:

PDF, 16.44 MB

english, 2014

29

A Rapidly Reversible Chemical Dimerizer System to Study Lipid Signaling in Living Cells

Feng, Suihan, Laketa, Vibor, Stein, Frank, Rutkowska, Anna, MacNamara, Aidan, Depner, Sofia, Klingmüller, Ursula, Saez-Rodriguez, Julio, Schultz, Carsten

Journal:

Angewandte Chemie International Edition

Année:

2014

Langue:

english

Fichier:

PDF, 1.00 MB

english, 2014

30

Construction of large signaling pathways using an adaptive perturbation approach with phosphoproteomic data

Melas, Ioannis N., Mitsos, Alexander, Messinis, Dimitris E., Weiss, Thomas S., Rodriguez, Julio-Saez, Alexopoulos, Leonidas G.

Journal:

Molecular BioSystems

Année:

2012

Langue:

english

Fichier:

PDF, 4.51 MB

english, 2012

31

[Advances in Intelligent Systems and Computing] 8th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2014) Volume 294 || Improving miRNA Classification Using an Exhaustive Set of Features

Saez-Rodriguez, Julio, Rocha, Miguel P., Fdez-Riverola, Florentino, De Paz Santana, Juan F.

Année:

2014

Langue:

english

Fichier:

PDF, 223 KB

english, 2014

32

Bridging the layers: towards integration of signal transduction, regulation and metabolism into mathematical models

Gonçalves, Emanuel, Bucher, Joachim, Ryll, Anke, Niklas, Jens, Mauch, Klaus, Klamt, Steffen, Rocha, Miguel, Saez-Rodriguez, Julio

Journal:

Molecular BioSystems

Année:

2013

Langue:

english

Fichier:

PDF, 1.71 MB

english, 2013

33

Cancer develops, progresses and responds to therapies through restricted perturbation of the protein–protein interaction network

Serra-Musach, Jordi, Aguilar, Helena, Iorio, Francesco, Comellas, Francesc, Berenguer, Antoni, Brunet, Joan, Saez-Rodriguez, Julio, Pujana, Miguel Angel

Journal:

Integrative Biology

Année:

2012

Langue:

english

Fichier:

PDF, 3.33 MB

english, 2012

34

[Advances in Intelligent Systems and Computing] 8th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2014) Volume 294 || A Method to Calibrate Metabolic Network Models with Experimental Datasets

Saez-Rodriguez, Julio, Rocha, Miguel P., Fdez-Riverola, Florentino, De Paz Santana, Juan F.

Année:

2014

Langue:

english

Fichier:

PDF, 242 KB

english, 2014

35

[Advances in Intelligent Systems and Computing] 8th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2014) Volume 294 || Evaluating Pathway Enumeration Algorithms in Metabolic Engineering Case Studies

Saez-Rodriguez, Julio, Rocha, Miguel P., Fdez-Riverola, Florentino, De Paz Santana, Juan F.

Année:

2014

Langue:

english

Fichier:

PDF, 241 KB

english, 2014

36

Mapping the human phosphatome on growth pathways

Sacco, Francesca, Gherardini, Pier Federico, Paoluzi, Serena, Saez-Rodriguez, Julio, Helmer-Citterich, Manuela, Ragnini-Wilson, Antonella, Castagnoli, Luisa, Cesareni, Gianni

Journal:

Molecular Systems Biology

Année:

2012

Langue:

english

Fichier:

PDF, 722 KB

english, 2012

37

A Rapidly Reversible Chemical Dimerizer System to Study Lipid Signaling in Living Cells

Feng, Suihan, Laketa, Vibor, Stein, Frank, Rutkowska, Anna, MacNamara, Aidan, Depner, Sofia, Klingmüller, Ursula, Saez-Rodriguez, Julio, Schultz, Carsten

Journal:

Angewandte Chemie

Année:

2014

Langue:

english

Fichier:

PDF, 1021 KB

english, 2014

38

BioPreDyn-bench: a suite of benchmark problems for dynamic modelling in systems biology

Villaverde, Alejandro F, Henriques, David, Smallbone, Kieran, Bongard, Sophia, Schmid, Joachim, Cicin-Sain, Damjan, Crombach, Anton, Saez-Rodriguez, Julio, Mauch, Klaus, Balsa-Canto, Eva, Mendes, Pedr

Journal:

BMC Systems Biology

Année:

2015

Langue:

english

Fichier:

PDF, 942 KB

english, 2015

39

[Advances in Intelligent Systems and Computing] 8th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2014) Volume 294 || Bringing Named Entity Recognition on Drupal Content Management System

Saez-Rodriguez, Julio, Rocha, Miguel P., Fdez-Riverola, Florentino, De Paz Santana, Juan F.

Année:

2014

Langue:

english

Fichier:

PDF, 1.10 MB

english, 2014

40

Identification of drug-specific pathways based on gene expression data: application to drug induced lung injury

Melas, Ioannis N., Sakellaropoulos, Theodore, Iorio, Francesco, Alexopoulos, Leonidas G., Loh, Wei-Yin, Lauffenburger, Douglas A., Saez-Rodriguez, Julio, Bai, Jane P. F.

Journal:

Integrative Biology

Année:

2015

Langue:

english

Fichier:

PDF, 4.07 MB

english, 2015

41

[Advances in Intelligent Systems and Computing] 8th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2014) Volume 294 || Timed and Probabilistic Model Checking over Phylogenetic Trees

Saez-Rodriguez, Julio, Rocha, Miguel P., Fdez-Riverola, Florentino, De Paz Santana, Juan F.

Année:

2014

Langue:

english

Fichier:

PDF, 237 KB

english, 2014

42

A single-cell model of PIP3 dynamics using chemical dimerization

MacNamara, Aidan, Stein, Frank, Feng, Suihan, Schultz, Carsten, Saez-Rodriguez, Julio

Journal:

Bioorganic & Medicinal Chemistry

Année:

2015

Langue:

english

Fichier:

PDF, 1.85 MB

english, 2015

43

State–time spectrum of signal transduction logic models

MacNamara, Aidan, Terfve, Camille, Henriques, David, Bernabé, Beatriz Peñalver, Saez-Rodriguez, Julio

Journal:

Physical Biology

Année:

2012

Langue:

english

Fichier:

PDF, 1.04 MB

english, 2012

44

Identifying Drug Effects via Pathway Alterations using an Integer Linear Programming Optimization Formulation on Phosphoproteomic Data

Mitsos, Alexander, Melas, Ioannis N., Siminelakis, Paraskeuas, Chairakaki, Aikaterini D., Saez-Rodriguez, Julio, Alexopoulos, Leonidas G., Bourne, Philip E.

Journal:

PLoS Computational Biology

Année:

2009

Langue:

english

Fichier:

PDF, 1.43 MB

english, 2009

45

A Logical Model Provides Insights into T Cell Receptor Signaling

Saez-Rodriguez, Julio, Simeoni, Luca, Lindquist, Jonathan A., Hemenway, Rebecca, Bommhardt, Ursula, Arndt, Boerge, Haus, Utz-Uwe, Weismantel, Robert, Gilles, Ernst D., Klamt, Steffen, Schraven, Burkha

Journal:

PLoS Computational Biology

Année:

2007

Langue:

english

Fichier:

PDF, 751 KB

english, 2007

46

Training Signaling Pathway Maps to Biochemical Data with Constrained Fuzzy Logic: Quantitative Analysis of Liver Cell Responses to Inflammatory Stimuli

Morris, Melody K., Saez-Rodriguez, Julio, Clarke, David C., Sorger, Peter K., Lauffenburger, Douglas A., Beard, Daniel A.

Journal:

PLoS Computational Biology

Année:

2011

Langue:

english

Fichier:

PDF, 2.90 MB

english, 2011

47

The Logic of EGFR/ErbB Signaling: Theoretical Properties and Analysis of High-Throughput Data

Samaga, Regina, Saez-Rodriguez, Julio, Alexopoulos, Leonidas G., Sorger, Peter K., Klamt, Steffen, Asthagiri, Anand R.

Journal:

PLoS Computational Biology

Année:

2009

Langue:

english

Fichier:

PDF, 2.19 MB

english, 2009

48

Empirical inference of circuitry and plasticity in a kinase signaling network

Wilkes, Edmund H., Terfve, Camille, Gribben, John G., Saez-Rodriguez, Julio, Cutillas, Pedro Rodriguez

Journal:

Proceedings of the National Academy of Sciences

Année:

2015

Langue:

english

Fichier:

PDF, 1.92 MB

english, 2015

49

Integrative approaches for signalling and metabolic networks

Hatzimanikatis, Vassily, Saez-Rodriguez, Julio

Journal:

Integrative Biology

Année:

2015

Langue:

english

Fichier:

PDF, 1.28 MB

english, 2015

50

Learning Boolean logic models of signaling networks with ASP

Videla, Santiago, Guziolowski, Carito, Eduati, Federica, Thiele, Sven, Gebser, Martin, Nicolas, Jacques, Saez-Rodriguez, Julio, Schaub, Torsten, Siegel, Anne

Journal:

Theoretical Computer Science

Année:

2014

Langue:

english

Fichier:

PDF, 2.15 MB

english, 2014