scholarly journals Identifying novel glioma associated pathways based on systems biology level meta-analysis

2013 ◽  
Vol 7 (Suppl 2) ◽  
pp. S9 ◽  
Author(s):  
Yangfan Hu ◽  
Jinquan Li ◽  
Wenying Yan ◽  
Jiajia Chen ◽  
Yin Li ◽  
...  
Keyword(s):  
Systems Biology ◽  
Meta Analysis

scholarly journals Cloud‐based archived metabolomics data: A resource for in‐source fragmentation/annotation, meta‐analysis and systems biology

2020 ◽  
Author(s):  
Amelia Palermo ◽  
Tao Huan ◽  
Duane Rinehart ◽  
Markus M. Rinschen ◽  
Shuzhao Li ◽  
...  
Keyword(s):  
Systems Biology ◽  
Meta Analysis ◽  
Metabolomics Data

scholarly journals LipidLynxX: a data transfer hub to support integration of large scale lipidomics datasets

2020 ◽  
Author(s):  
Zhixu Ni ◽  
Maria Fedorova
Keyword(s):  
Systems Biology ◽  
Data Integration ◽  
High Throughput ◽  
Large Scale ◽  
Data Transfer ◽  
Structural Information ◽  
Meta Analysis ◽  
Health And Disease ◽  
Different Levels ◽  
Cross Match

AbstractModern high throughput lipidomics provides large-scale datasets reporting hundreds of lipid molecular species. However, cross-laboratory comparison, meta-analysis, and systems biology integration of in-house generated and published datasets remain challenging due to a high diversity of used lipid annotation systems, different levels of reported structural information, and shortage in links to data integration resources. To support lipidomics data integration and interoperability of experimental lipidomics with data integration tools, we developed LipidLynxX serving as a hub facilitating data flow from high-throughput lipidomics analysis to systems biology data integration. LipidLynxX provides the possibility to convert, cross-match, and link various lipid annotations to the tools supporting lipid ontology, pathway, and network analysis aiming systems-wide integration and functional annotation of lipidome dynamics in health and disease. LipidLynxX is a flexible, customizable open-access tool freely available for download at https://github.com/SysMedOs/LipidLynxX.

Evaluating Disorders with a Complex Genetics Basis. The Future Roles of Meta-analysis and Systems Biology

2005 ◽  
Vol 50 (12) ◽  
pp. 2195-2202 ◽  
Author(s):  
David C. Whitcomb ◽  
Elie Aoun ◽  
Yoram Vodovotz ◽  
Gilles Clermont ◽  
M. Michael Barmada
Keyword(s):  
Systems Biology ◽  
Meta Analysis ◽  
Complex Genetics ◽  
The Future

scholarly journals Systems biology analysis of lung fibrosis-related genes in the bleomycin mouse model

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Dmitri Toren ◽  
Hagai Yanai ◽  
Reem Abu Taha ◽  
Gabriela Bunu ◽  
Eugen Ursu ◽  
...  
Keyword(s):  
Data Mining ◽  
Systems Biology ◽  
Pulmonary Fibrosis ◽  
Lung Fibrosis ◽  
Therapeutic Strategy ◽  
Meta Analysis ◽  
Systematic Analysis ◽  
Manual Curation ◽  
Age Related ◽  
Human Pathology

AbstractTissue fibrosis is a major driver of pathology in aging and is involved in numerous age-related diseases. The lungs are particularly susceptible to fibrotic pathology which is currently difficult to treat. The mouse bleomycin-induced fibrosis model was developed to investigate lung fibrosis and widely used over the years. However, a systematic analysis of the accumulated results has not been performed. We undertook a comprehensive data mining and subsequent manual curation, resulting in a collection of 213 genes (available at the TiRe database, www.tiredb.org), which when manipulated had a clear impact on bleomycin-induced lung fibrosis. Our meta-analysis highlights the age component in pulmonary fibrosis and strong links of related genes with longevity. The results support the validity of the bleomycin model to human pathology and suggest the importance of a multi-target therapeutic strategy for pulmonary fibrosis treatment.

scholarly journals Tissue-specific transcriptional biomarkers in medicinal plants: Application of large-scale meta-analysis and computational systems biology

Gene ◽  
2019 ◽  
Vol 691 ◽  
pp. 114-124 ◽  
Author(s):  
Ahmad Tahmasebi ◽  
Esmaeil Ebrahimie ◽  
Hassan Pakniyat ◽  
Mansour Ebrahimi ◽  
Manijeh Mohammadi-Dehcheshmeh
Keyword(s):  
Systems Biology ◽  
Medicinal Plants ◽  
Large Scale ◽  
Meta Analysis ◽  
Computational Systems Biology ◽  
Tissue Specific ◽  
Computational Systems ◽  
Transcriptional Biomarkers

Combining integrated systems-biology approaches with intervention-based experimental design provides a higher-resolution path forward for microbiome research

2019 ◽  
Vol 42 ◽  
Author(s):  
J. Alfredo Blakeley-Ruiz ◽  
Carlee S. McClintock ◽  
Ralph Lydic ◽  
Helen A. Baghdoyan ◽  
James J. Choo ◽  
...  
Keyword(s):  
Systems Biology ◽  
High Resolution ◽  
Experimental Design ◽  
Integrated Systems ◽  
Microbiome Research ◽  
Constructive Criticism

Abstract The Hooks et al. review of microbiota-gut-brain (MGB) literature provides a constructive criticism of the general approaches encompassing MGB research. This commentary extends their review by: (a) highlighting capabilities of advanced systems-biology “-omics” techniques for microbiome research and (b) recommending that combining these high-resolution techniques with intervention-based experimental design may be the path forward for future MGB research.

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