ArticleBioinformatics and biology insights2013
A modular cell-type focused inflammatory process network model for non-diseased pulmonary tissue.
Article in Bioinformatics and biology insights, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
20 citing papers in PubMed, 54 citations in OpenAlex.
- The status of causality in biological databases: data resources and data retrieval possibilities to support logical modeling.Briefings in bioinformatics · 2021Article
- Protective Effects of Quercetin on Livers from Mice Exposed to Long-Term Cigarette Smoke.BioMed research international · 2020Article
- NPA: an R package for computing network perturbation amplitudes using gene expression data and two-layer networks.BMC bioinformatics · 2019Article
- Construction of a Suite of Computable Biological Network Models Focused on Mucociliary Clearance in the Respiratory Tract.Frontiers in genetics · 2019Article
- Systems toxicology meta-analysis ofToxicology research · 2017Article
- Mechanistic Evaluation of the Impact of Smoking and Chronic Obstructive Pulmonary Disease on the Nasal Epithelium.Clinical medicine insights. Circulatory, respiratory and pulmonary medicine · 2017Article
- Community-Reviewed Biological Network Models for Toxicology and Drug Discovery Applications.Gene regulation and systems biology · 2016Article
- Impact Assessment of Cigarette Smoke Exposure on Organotypic Bronchial Epithelial Tissue Cultures: A Comparison of Mono-Culture and Coculture Model Containing Fibroblasts.Toxicological sciences : an official journal of the Society of Toxicology · 2015Article
- Transcriptional profiling and targeted proteomics reveals common molecular changes associated with cigarette smoke-induced lung emphysema development in five susceptible mouse strains.Inflammation research : official journal of the European Histamine Research Society ... [et al.] · 2015Article
- Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems.Database : the journal of biological databases and curation · 2015Article
- 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.Bioinformatics and biology insights · 2015Article
- Enhancement of COPD biological networks using a web-based collaboration interface.F1000Research · 2015Article
- In vitro systems toxicology approach to investigate the effects of repeated cigarette smoke exposure on human buccal and gingival organotypic epithelial tissue cultures.Toxicology mechanisms and methods · 2014Article
- An algorithm for score aggregation over causal biological networks based on random walk sampling.BMC research notes · 2014Article
- Proteomics for systems toxicology.Computational and structural biotechnology journal · 2014Review
- Quantification of biological network perturbations for mechanistic insight and diagnostics using two-layer causal models.BMC bioinformatics · 2014Article
- A vascular biology network model focused on inflammatory processes to investigate atherogenesis and plaque instability.Journal of translational medicine · 2014Article
- Systems toxicology: from basic research to risk assessment.Chemical research in toxicology · 2014Article
- Systematic verification of upstream regulators of a computable cellular proliferation network model on non-diseased lung cells using a dedicated dataset.Bioinformatics and biology insights · 2013Article
- On Crowd-verification of Biological Networks.Bioinformatics and biology insights · 2013Article
Corrections and comments
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Authors and funding
16 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Exposure to environmental stressors such as cigarette smoke (CS) elicits a variety of biological responses in humans, including the induction of inflammatory responses. These responses are especially pronounced in the lung, where pulmonary cells sit at the interface between the body's internal and external environments. We combined a literature survey with a computational analysis of multiple transcriptomic data sets to construct a computable causal network model (the Inflammatory Process Network (IPN)) of the main pulmonary inflammatory processes. The IPN model predicted decreased epithelial cell barrier defenses and increased mucus hypersecretion in human bronchial epithelial cells, and an attenuated pro-inflammatory (M1) profile in alveolar macrophages following exposure to CS, consistent with prior results. The IPN provides a comprehensive framework of experimentally supported pathways related to CS-induced pulmonary inflammation. The IPN is freely available to the scientific community as a resource with broad applicability to study the pathogenesis of pulmonary disease.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.