Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems

Database ◽

10.1093/database/bav030 ◽

2015 ◽

Vol 2015 ◽

Cited By ~ 55

Author(s):

Stéphanie Boué ◽

Marja Talikka ◽

Jurjen Willem Westra ◽

William Hayes ◽

Anselmo Di Fabio ◽

...

Keyword(s):

Biological Network ◽

Network Models ◽

Network Database

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Causal Biological Network Database: A Comprehensive Platform of Causal Biological Network Models Focused on the Pulmonary and Vascular Systems

Methods in Pharmacology and Toxicology - Computational Systems Toxicology ◽

10.1007/978-1-4939-2778-4_3 ◽

2015 ◽

pp. 65-93 ◽

Cited By ~ 6

Author(s):

Marja Talikka ◽

Stephanie Boue ◽

Walter K. Schlage

Keyword(s):

Biological Network ◽

Network Models ◽

Network Database

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Knowledge Mining Biological Network Models

Intelligent Information Processing V - IFIP Advances in Information and Communication Technology ◽

10.1007/978-3-642-16327-2_2 ◽

2010 ◽

pp. 2-2

Author(s):

Stephen Muggleton

Keyword(s):

Biological Network ◽

Network Models ◽

Knowledge Mining

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Simultaneous Stochastic Simulation of Multiple Perturbations in Biological Network Models

Computational Methods in Systems Biology - Lecture Notes in Computer Science ◽

10.1007/978-3-540-75140-3_2 ◽

2007 ◽

pp. 15-31 ◽

Cited By ~ 3

Author(s):

Werner Sandmann

Keyword(s):

Stochastic Simulation ◽

Biological Network ◽

Network Models

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Using activity time windows and logical representation to reduce the complexity of biological network models: G1/S checkpoint pathway with DNA damage

Biosystems ◽

10.1016/j.biosystems.2020.104128 ◽

2020 ◽

Vol 191-192 ◽

pp. 104128

Author(s):

Mutaz Khazaaleh ◽

Sandhya Samarasinghe

Keyword(s):

Dna Damage ◽

Biological Network ◽

Time Windows ◽

Network Models ◽

Activity Time ◽

Checkpoint Pathway ◽

Logical Representation

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Construction of a Suite of Computable Biological Network Models Focused on Mucociliary Clearance in the Respiratory Tract

Frontiers in Genetics ◽

10.3389/fgene.2019.00087 ◽

2019 ◽

Vol 10 ◽

Cited By ~ 2

Author(s):

Hasmik Yepiskoposyan ◽

Marja Talikka ◽

Stefano Vavassori ◽

Florian Martin ◽

Alain Sewer ◽

...

Keyword(s):

Respiratory Tract ◽

Mucociliary Clearance ◽

Biological Network ◽

Network Models

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Reconstruction of biological networks based on life science data integration

Journal of Integrative Bioinformatics ◽

10.1515/jib-2010-146 ◽

2010 ◽

Vol 7 (2) ◽

Cited By ~ 1

Author(s):

Benjamin Kormeier ◽

Klaus Hippe ◽

Patrizio Arrigo ◽

Thoralf Töpel ◽

Sebastian Janowski ◽

...

Keyword(s):

Cardiovascular Disease ◽

Data Integration ◽

Biological Networks ◽

Life Science ◽

Biological Network ◽

Network Models ◽

Biological Data ◽

Science Data ◽

Biological Data Integration

SummaryFor the implementation of the virtual cell, the fundamental question is how to model and simulate complex biological networks. Therefore, based on relevant molecular database and information systems, biological data integration is an essential step in constructing biological networks. In this paper, we will motivate the applications BioDWH - an integration toolkit for building life science data warehouses, CardioVINEdb - a information system for biological data in cardiovascular-disease and VANESA- a network editor for modeling and simulation of biological networks. Based on this integration process, the system supports the generation of biological network models. A case study of a cardiovascular-disease related gene-regulated biological network is also presented.

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