ArticleBMC systems biology2010
Multi-level reproducibility of signature hubs in human interactome for breast cancer metastasis.
Article in BMC systems biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed, 32 citations in OpenAlex.
- Inferring Virus-Host relationship between HPV and its host Homo sapiens using protein interaction network.Scientific reports · 2020Article
- Analyzing of Molecular Networks for Human Diseases and Drug Discovery.Current topics in medicinal chemistry · 2018Review
- Computational dynamic approaches for temporal omics data with applications to systems medicine.BioData mining · 2017Review
- CytoGTA: A cytoscape plugin for identifying discriminative subnetwork markers using a game theoretic approach.PloS one · 2017Article
- Integrative network-based approach identifies key genetic elements in breast invasive carcinoma.BMC genomics · 2015Article
- VAN: an R package for identifying biologically perturbed networks via differential variability analysis.BMC research notes · 2013Article
- Topology of molecular interaction networks.BMC systems biology · 2013Review
- Systems biology for molecular life sciences and its impact in biomedicine.Cellular and molecular life sciences : CMLS · 2013Review
- Genes dysregulated to different extent or oppositely in estrogen receptor-positive and estrogen receptor-negative breast cancers.PloS one · 2013Article
- Combined gene expression and protein interaction analysis of dynamic modularity in glioma prognosis.Journal of neuro-oncology · 2012Article
- Differential network entropy reveals cancer system hallmarks.Scientific reports · 2012Article
- A Steiner tree-based method for biomarker discovery and classification in breast cancer metastasis.BMC genomics · 2012Article
- Network analysis of gene lists for finding reproducible prognostic breast cancer gene signatures.Bioinformation · 2012Article
- Reproducibility and concordance of differential DNA methylation and gene expression in cancer.PloS one · 2012Article
- Targeting oncogenic protein-protein interactions by diversity oriented synthesis and combinatorial chemistry approaches.Molecules (Basel, Switzerland) · 2011Review
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundIt has been suggested that, in the human protein-protein interaction network, changes of co-expression between highly connected proteins ("hub") and their interaction neighbours might have important roles in cancer metastasis and be predictive disease signatures for patient outcome. However, for a cancer, such disease signatures identified from different studies have little overlap.
resultsHere, we propose a systemic approach to evaluate the reproducibility of disease signatures at multiple levels, on the basis of some statistically testable biological models. Using two datasets for breast cancer metastasis, we showed that different signature hubs identified from different studies were highly consistent in terms of significantly sharing interaction neighbours and displaying consistent co-expression changes with their overlapping neighbours, whereas the shared interaction neighbours were significantly over-represented with known cancer genes and enriched in pathways deregulated in breast cancer pathogenesis. Then, we showed that the signature hubs identified from the two datasets were highly reproducible at the protein interaction and pathway levels in three other independent datasets.
conclusionsOur results provide a possible biological model that different signature hubs altered in different patient cohorts could disturb the same pathways associated with cancer metastasis through their interaction neighbours.
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