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Rheumatoid arthritis with deficiency pattern in traditional chinese medicine shows correlation with cold and hot patterns in gene expression profiles.

Wang M, Chen G, Lu C, Xiao C, Li L, Niu X, He X, Jiang M, Lu A - Evid Based Complement Alternat Med (2013)

Bottom Line: Based on TCM theory, deficiency pattern is another key pattern diagnosis among RA patients, which leads to a specific treatment principle in clinical management.The TCM deficiency pattern-related genes network comprises 7 significantly, highly connected regions which are mainly involved in protein transcription processes, protein ubiquitination, toll-like receptor activated NF- κ B regulated gene transcription and apoptosis, RNA clipping, NF- κ B signal, nucleotide metabolism-related apoptosis, and immune response processes.Network analysis can be used as a powerful tool for detecting the characteristic mechanism related to specific TCM pattern and the correlations between different patterns.

View Article: PubMed Central - PubMed

Affiliation: Institute of Basic Research in Clinical Medicine, China Academy of Traditional Chinese Medicine, Beijing 100700, China.

ABSTRACT
In our precious study, the correlation between cold and hot patterns in traditional Chinese medicine (TCM) and gene expression profiles in rheumatoid arthritis (RA) has been explored. Based on TCM theory, deficiency pattern is another key pattern diagnosis among RA patients, which leads to a specific treatment principle in clinical management. Therefore, a further analysis was performed aiming at exploring the characteristic gene expression profile of deficiency pattern and its correlation with cold and hot patterns in RA patients by bioinformatics analysis approach based on gene expression profiles data detected with microarray technology. The TCM deficiency pattern-related genes network comprises 7 significantly, highly connected regions which are mainly involved in protein transcription processes, protein ubiquitination, toll-like receptor activated NF- κ B regulated gene transcription and apoptosis, RNA clipping, NF- κ B signal, nucleotide metabolism-related apoptosis, and immune response processes. Toll-like receptor activated NF- κ B regulated gene transcription and apoptosis pathways are potential specific pathways related to TCM deficiency patterns in RA patients; TCM deficiency pattern is probably related to immune response. Network analysis can be used as a powerful tool for detecting the characteristic mechanism related to specific TCM pattern and the correlations between different patterns.

No MeSH data available.


Related in: MedlinePlus

The subnetworks made up of highly connected regions and functions of the nodes in TCM deficiency pattern-related genes. Cycles represent nodes. All edges represent interactions between the nodes. Clusters with score >2 were considered to be significant (it represents the log of the probability that the network was found by chance).
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fig2: The subnetworks made up of highly connected regions and functions of the nodes in TCM deficiency pattern-related genes. Cycles represent nodes. All edges represent interactions between the nodes. Clusters with score >2 were considered to be significant (it represents the log of the probability that the network was found by chance).

Mentions: To further refine the biological functions of these genes, protein and protein interaction analysis was applied based on the genes listed in Table 3, and the molecular networks for those genes were built up (Figure 1). In the network, the nodes represent proteins and the edges represent interactions between the proteins. More importantly, during the process of analysis, cold and hot patterns related differential genes (data not shown) were marked in the deficiency pattern network if those cold or hot pattern-related genes were included in the network in order to clarify the potential relations among deficiency pattern and cold/hot pattern in RA. Seven significantly, highly connected regions were proposed by IPCA, and these subnetworks of highly connected regions were visualized by cytoscape (Figure 2).


Rheumatoid arthritis with deficiency pattern in traditional chinese medicine shows correlation with cold and hot patterns in gene expression profiles.

Wang M, Chen G, Lu C, Xiao C, Li L, Niu X, He X, Jiang M, Lu A - Evid Based Complement Alternat Med (2013)

The subnetworks made up of highly connected regions and functions of the nodes in TCM deficiency pattern-related genes. Cycles represent nodes. All edges represent interactions between the nodes. Clusters with score >2 were considered to be significant (it represents the log of the probability that the network was found by chance).
© Copyright Policy - open-access
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3794642&req=5

fig2: The subnetworks made up of highly connected regions and functions of the nodes in TCM deficiency pattern-related genes. Cycles represent nodes. All edges represent interactions between the nodes. Clusters with score >2 were considered to be significant (it represents the log of the probability that the network was found by chance).
Mentions: To further refine the biological functions of these genes, protein and protein interaction analysis was applied based on the genes listed in Table 3, and the molecular networks for those genes were built up (Figure 1). In the network, the nodes represent proteins and the edges represent interactions between the proteins. More importantly, during the process of analysis, cold and hot patterns related differential genes (data not shown) were marked in the deficiency pattern network if those cold or hot pattern-related genes were included in the network in order to clarify the potential relations among deficiency pattern and cold/hot pattern in RA. Seven significantly, highly connected regions were proposed by IPCA, and these subnetworks of highly connected regions were visualized by cytoscape (Figure 2).

Bottom Line: Based on TCM theory, deficiency pattern is another key pattern diagnosis among RA patients, which leads to a specific treatment principle in clinical management.The TCM deficiency pattern-related genes network comprises 7 significantly, highly connected regions which are mainly involved in protein transcription processes, protein ubiquitination, toll-like receptor activated NF- κ B regulated gene transcription and apoptosis, RNA clipping, NF- κ B signal, nucleotide metabolism-related apoptosis, and immune response processes.Network analysis can be used as a powerful tool for detecting the characteristic mechanism related to specific TCM pattern and the correlations between different patterns.

View Article: PubMed Central - PubMed

Affiliation: Institute of Basic Research in Clinical Medicine, China Academy of Traditional Chinese Medicine, Beijing 100700, China.

ABSTRACT
In our precious study, the correlation between cold and hot patterns in traditional Chinese medicine (TCM) and gene expression profiles in rheumatoid arthritis (RA) has been explored. Based on TCM theory, deficiency pattern is another key pattern diagnosis among RA patients, which leads to a specific treatment principle in clinical management. Therefore, a further analysis was performed aiming at exploring the characteristic gene expression profile of deficiency pattern and its correlation with cold and hot patterns in RA patients by bioinformatics analysis approach based on gene expression profiles data detected with microarray technology. The TCM deficiency pattern-related genes network comprises 7 significantly, highly connected regions which are mainly involved in protein transcription processes, protein ubiquitination, toll-like receptor activated NF- κ B regulated gene transcription and apoptosis, RNA clipping, NF- κ B signal, nucleotide metabolism-related apoptosis, and immune response processes. Toll-like receptor activated NF- κ B regulated gene transcription and apoptosis pathways are potential specific pathways related to TCM deficiency patterns in RA patients; TCM deficiency pattern is probably related to immune response. Network analysis can be used as a powerful tool for detecting the characteristic mechanism related to specific TCM pattern and the correlations between different patterns.

No MeSH data available.


Related in: MedlinePlus