Cargando…

Quantification of biological network perturbations for mechanistic insight and diagnostics using two-layer causal models

BACKGROUND: High-throughput measurement technologies such as microarrays provide complex datasets reflecting mechanisms perturbed in an experiment, typically a treatment vs. control design. Analysis of these information rich data can be guided based on a priori knowledge, such as networks or set of...

Descripción completa

Detalles Bibliográficos
Autores principales:	Martin, Florian, Sewer, Alain, Talikka, Marja, Xiang, Yang, Hoeng, Julia, Peitsch, Manuel C
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2014
Materias:	Methodology Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4227138/ https://www.ncbi.nlm.nih.gov/pubmed/25015298 http://dx.doi.org/10.1186/1471-2105-15-238

Ejemplares similares

Assessment of network perturbation amplitudes by applying high-throughput data to causal biological networks
por: Martin, Florian, et al.
Publicado: (2012)

NPA: an R package for computing network perturbation amplitudes using gene expression data and two-layer networks
por: Martin, Florian, et al.
Publicado: (2019)

Semi-Automated Curation Allows Causal Network Model Building for the Quantification of Age-Dependent Plaque Progression in ApoE(−/−) Mouse
por: Szostak, Justyna, et al.
Publicado: (2016)

Mechanistic Evaluation of the Impact of Smoking and Chronic Obstructive Pulmonary Disease on the Nasal Epithelium
por: Talikka, Marja, et al.
Publicado: (2017)

Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems
por: Boué, Stéphanie, et al.
Publicado: (2015)

Construction of a Suite of Computable Biological Network Models Focused on Mucociliary Clearance in the Respiratory Tract
por: Yepiskoposyan, Hasmik, et al.
Publicado: (2019)

Systems toxicology approaches enable mechanistic comparison of spontaneous and cigarette smoke-related lung tumor development in the A/J mouse model
por: Luettich, Karsta, et al.
Publicado: (2014)

Systems biology approach highlights mechanistic differences between Crohn’s disease and ulcerative colitis
por: Ruiz Castro, Pedro A., et al.
Publicado: (2021)

Causal Biological Network Model for Inflammasome Signaling Applied for Interpreting Transcriptomic Changes in Various Inflammatory States
por: Yepiskoposyan, Hasmik, et al.
Publicado: (2022)

Systems Approaches Evaluating the Perturbation of Xenobiotic Metabolism in Response to Cigarette Smoke Exposure in Nasal and Bronchial Tissues
por: Iskandar, Anita R., et al.
Publicado: (2013)

A vascular biology network model focused on inflammatory processes to investigate atherogenesis and plaque instability
por: De León, Héctor, et al.
Publicado: (2014)

Causal biological network models for reactive astrogliosis: a systems approach to neuroinflammation
por: Barkhuizen, Melinda, et al.
Publicado: (2022)

A Meta-Analysis of the Performance of a Blood-Based Exposure Response Gene Signature Across Clinical Studies on the Tobacco Heating System 2.2 (THS 2.2)
por: Martin, Florian, et al.
Publicado: (2019)

In vitro systems toxicology approach to investigate the effects of repeated cigarette smoke exposure on human buccal and gingival organotypic epithelial tissue cultures
por: Schlage, Walter K., et al.
Publicado: (2014)

Tobacco Alkaloid Assessment in a DSS-Induced Colitis Mouse Model with a Fully Humanized Immune System
por: Verhaeghe, Catherine, et al.
Publicado: (2023)

Systems Toxicology Approach for Assessing Developmental Neurotoxicity in Larval Zebrafish
por: Li, Roman A., et al.
Publicado: (2021)

Construction of biological networks from unstructured information based on a semi-automated curation workflow
por: Szostak, Justyna, et al.
Publicado: (2015)

Confero: an integrated contrast data and gene set platform for computational analysis and biological interpretation of omics data
por: Hermida, Leandro, et al.
Publicado: (2013)

Assessment of a novel multi-array normalization method based on spike-in control probes suitable for microRNA datasets with global decreases in expression
por: Sewer, Alain, et al.
Publicado: (2014)

A Systems Biology Approach Reveals the Dose- and Time-Dependent Effect of Primary Human Airway Epithelium Tissue Culture After Exposure to Cigarette Smoke In Vitro
por: Mathis, Carole, et al.
Publicado: (2015)

Proteomics and Lipidomics in Inflammatory Bowel Disease Research: From Mechanistic Insights to Biomarker Identification
por: Titz, Bjoern, et al.
Publicado: (2018)

An algorithm for score aggregation over causal biological networks based on random walk sampling
por: Vasilyev, Dmitry M, et al.
Publicado: (2014)

Construction of a computable cell proliferation network focused on non-diseased lung cells
por: Westra, Jurjen W, et al.
Publicado: (2011)

Training and evaluation corpora for the extraction of causal relationships encoded in biological expression language (BEL)
por: Fluck, Juliane, et al.
Publicado: (2016)

Impact Assessment of Cigarette Smoke Exposure on Organotypic Bronchial Epithelial Tissue Cultures: A Comparison of Mono-Culture and Coculture Model Containing Fibroblasts
por: Iskandar, Anita R., et al.
Publicado: (2015)

The reduction of DSS-induced colitis severity in mice exposed to cigarette smoke is linked to immune modulation and microbial shifts
por: Lo Sasso, Giuseppe, et al.
Publicado: (2020)

On Crowd-verification of Biological Networks
por: Ansari, Sam, et al.
Publicado: (2013)

Causal modeling in a multi-omic setting: insights from GAW20
por: Auerbach, Jonathan, et al.
Publicado: (2018)

A meta-analysis of microRNAs expressed in human aerodigestive epithelial cultures and their role as potential biomarkers of exposure response to nicotine-containing products
por: Sewer, Alain, et al.
Publicado: (2020)

Development of an Elliptical Perturbation System that provides unexpected perturbations during elliptical walking (the EPES system)
por: Sade, Shoval, et al.
Publicado: (2023)

Mergeomics: multidimensional data integration to identify pathogenic perturbations to biological systems
por: Shu, Le, et al.
Publicado: (2016)

Pharmacogenetic Perturbations in Humans as a Tool to Generate Mechanistic Insight
por: Florez, Jose C.
Publicado: (2013)

Dynamic regulatory on/off minimization for biological systems under internal temporal perturbations
por: Kleessen, Sabrina, et al.
Publicado: (2012)

Causal analysis of case-control data
por: Newman, Stephen C
Publicado: (2006)

Causal diagrams and the cross-sectional study
por: Shahar, Eyal, et al.
Publicado: (2013)

Causal diagrams, the placebo effect, and the expectation effect
por: Shahar, Eyal, et al.
Publicado: (2013)

Causal diagrams, information bias, and thought bias
por: Shahar, Eyal, et al.
Publicado: (2010)

Investigating causal mechanisms in randomised controlled trials
por: Lee, Hopin, et al.
Publicado: (2019)

Lung transcriptomic clock predicts premature aging in cigarette smoke-exposed mice
por: Choukrallah, Mohamed-Amin, et al.
Publicado: (2020)

Organ on a chip: engineered microenvironments for safety and efficacy testing
por: Hoeng, Julia, et al.
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_ut9u89a2vgpirtvjf3glofeu2r