I. Crespo

发表

Global DNA methylation and transcriptional analyses of human ESC-derived cardiomyocytes

J. I. Izpisúa Belmonte, A. del Sol, Ying Gu, 2014, Protein & Cell.

Analysis of the dynamic co-expression network of heart regeneration in the zebrafish

Francisco Azuaje, Ioannis Xenarios, Isaac Crespo, 2016, Scientific Reports.

A general strategy for cellular reprogramming: The importance of transcription factor cross‐repression

A. del Sol, I. Crespo, 2013, Stem cells.

Identification of a RAI1-associated disease network through integration of exome sequencing, transcriptomics, and 3D genomics

N. Guex, A. Reymond, C. Shaw, 2016, Genome Medicine.

A Novel Network Integrating a miRNA-203/SNAI1 Feedback Loop which Regulates Epithelial to Mesenchymal Transition

Isaac Crespo, Guillaume Vetter, Michèle Moes, 2012, PloS one.

Modelling approaches to discovery in the tumor microenvironment

I. Xenarios, G. Coukos, I. Crespo, 2018 .

Identifying biological mechanisms for favorable cancer prognosis using non-hypothesis-driven iterative survival analysis

I. Xenarios, G. Coukos, I. Crespo, 2016, npj Systems Biology and Applications.

Gene regulatory network analysis supports inflammation as a key neurodegeneration process in prion disease

Hiroaki Kitano, Wiktor Jurkowski, Isaac Crespo, 2012, BMC Systems Biology.

Fisetin protects against cardiac cell death through reduction of ROS production and caspases activity

F. Azuaje, I. Xenarios, G. Dittmar, 2020, Scientific Reports.

Deciphering the Dynamic Transcriptional and Post-transcriptional Networks of Macrophages in the Healthy Heart and after Myocardial Injury.

I. Xenarios, I. Crespo, Vanessa Núñez, 2018, Cell reports.

Integrating Pathways of Parkinson's Disease in a Molecular Interaction Map

Samik Ghosh, Yukiko Matsuoka, Hiroaki Kitano, 2013, Molecular Neurobiology.

A Primer-Extension Assay for simultaneous use in cattle Genotype Assisted Selection, parentage and traceability analysis

I. Crespo, J. Cañón, S. Dunner, 2011 .

On different aspects of network analysis in systems biology

Charles Auffray, Nitin S. Baliga, Wiktor Jurkowski, 2013 .

Erratum to: On Different Aspects of Network Analysis in Systems Biology

Rudi Balling, Charles Auffray, Wiktor Jurkowski, 2013 .

Identification of a RAI1-associated disease network through integration of exome sequencing, transcriptomics, and 3D genomics

N. Guex, A. Reymond, C. Shaw, 2016, Genome Medicine.

Integrating Pathways of Parkinson's Disease in a Molecular Interaction Map

H. Kitano, Serge Eifes, A. del Sol, 2013, Molecular Neurobiology.

Global DNA methylation and transcriptional analyses of human ESC-derived cardiomyocytes

Jing Qu, Isaac Crespo, Kun Zhang, 2014, Protein & Cell.

Low-Dose Radiotherapy Reverses Tumor Immune Desertification and Resistance to Immunotherapy

John O. Prior, Santiago J. Carmona, G. Coukos, 2021, Cancer discovery.

Myeloid antigen-presenting cell niches sustain antitumor T cells and license PD-1 blockade via CD28 costimulation.

Santiago J. Carmona, P. Sorger, M. Delorenzi, 2021, Cancer cell.

Network analysis to model diseases and cellular reprogramming for therapeutic intervention

Isaac Crespo, I. Crespo, 2013 .

Tumor Microenvironment Cellular Crosstalk Predicts Response to Adoptive TIL Therapy in Melanoma

John O. Prior, N. Demartines, G. Coukos, 2022, bioRxiv.

Generation of Molecular Models and Pathways

Alan Bridge, Ioannis Xenarios, Julien Dorier, 2018 .

NFAT5 induction by the tumor microenvironment enforces CD8 T cell exhaustion

Santiago J. Carmona, S. Carmona, I. Crespo, 2022, bioRxiv.

Boolean regulatory network reconstruction using literature based knowledge with a genetic algorithm optimization method

Ioannis Xenarios, Martin Ebeling, Julien Dorier, 2016, BMC Bioinformatics.

Discrete Logic Modelling Optimization to Contextualize Prior Knowledge Networks Using PRUNET

Isaac Crespo, Ganna Androsova, A. del Sol, 2015, PloS one.

Systems Biology

Rudi Balling, Wiktor Jurkowski, Antony Le Béchec, 2013, Springer Netherlands.

Angiogenic Activity of Breast Cancer Patients’ Monocytes Reverted by Combined Use of Systems Modeling and Experimental Approaches

Ioannis Xenarios, Abhishek Garg, Brian J. Stevenson, 2015, PLoS Comput. Biol..

SourceData: a semantic platform for curating and searching figures

Ioannis Xenarios, Nancy George, Robin Liechti, 2016, Nature Methods.

Predicting combinations of immunomodulators to enhance dendritic cell-based vaccination based on a hybrid experimental and computational platform

Ioannis Xenarios, Isaac Crespo, Rita Ahmed, 2020, Computational and structural biotechnology journal.

The SIB Swiss Institute of Bioinformatics’ resources: focus on curated databases

Oliver Horlacher, Damian Szklarczyk, Christian von Mering, 2015, Nucleic Acids Res..

Expert curation for building network-based dynamical models: a case study on atherosclerotic plaque formation

Alan Bridge, Ioannis Xenarios, Julien Dorier, 2018, Database J. Biol. Databases Curation.

Orthogonal cytokine engineering enables novel synthetic effector states escaping canonical exhaustion in tumor-rejecting CD8+ T cells

Santiago J. Carmona, G. Coukos, S. Carmona, 2023, Nature Immunology.

Fisetin protects against cardiac cell death through reduction of ROS production and caspases activity

F. Azuaje, I. Xenarios, G. Dittmar, 2020, Scientific Reports.

A gene mapping bottleneck in the translational route from zebrafish to human

F. Azuaje, I. Crespo, Sophie Rodius, 2015, Front. Genet..

Predicting missing expression values in gene regulatory networks using a discrete logic modeling optimization guided by network stable states

Isaac Crespo, Abhimanyu Krishna, A. del Sol, 2012, Nucleic acids research.

Transcriptional reprogramming by IL-2 variant generates metabolically active stem-like T cells

G. Coukos, V. Hatzimanikatis, I. Crespo, 2023, bioRxiv.

PPARγ population shift produces disease-related changes in molecular networks associated with metabolic syndrome

J. Schneider, I. Crespo, K. Roomp, 2011, Cell Death and Disease.

PPAR c population shift produces disease-related changes in molecular networks associated with metabolic syndrome

I. Crespo, K. Roomp, W. Jurkowski, 2011 .

Tumor-reactive clonotype dynamics underlying clinical response to TIL therapy in melanoma

G. Coukos, U. Dafni, I. Crespo, 2023, bioRxiv.

Social networks help to infer causality in the tumor microenvironment

Ioannis Xenarios, Isaac Crespo, Marie-Agnès Doucey, 2016, BMC Research Notes.

Detecting cellular reprogramming determinants by differential stability analysis of gene regulatory networks

Wiktor Jurkowski, Isaac Crespo, Antonio del Sol, 2013, BMC Systems Biology.

The SIB Swiss Institute of Bioinformatics’ resources: focus on curated databases

Joshua L. Payne, Christian J. A. Sigrist, Brian J. Stevenson, 2015, Nucleic Acids Res..

Global DNA methylation and transcriptional analyses of human ESC-derived cardiomyocytes

Ying Gu, Nongluk Plongthongkum, C. Benner, 2013, Protein & cell.