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The autoimmune tautology: an in silico approach.

Cifuentes RA, Restrepo-Montoya D, Anaya JM - Autoimmune Dis (2012)

Bottom Line: Thus, our aim was to determine the main shared genes and to what extent they contribute to building clusters of AIDs.We found three clusters in which the genes with the highest contribution encoded proteins that showed strong and specific interactions.Our results support the common origin of AIDs and the role of genes involved in apoptosis such as CTLA4, FASLG, and IL10.

View Article: PubMed Central - PubMed

Affiliation: Center for Autoimmune Diseases Research (CREA), School of Medicine and Health Sciences, Universidad del Rosario, Carrera 24, No. 63-69 piso 3, Bogotá, Colombia.

ABSTRACT
There is genetic evidence of similarities and differences among autoimmune diseases (AIDs) that warrants looking at a general panorama of what has been published. Thus, our aim was to determine the main shared genes and to what extent they contribute to building clusters of AIDs. We combined a text-mining approach to build clusters of genetic concept profiles (GCPs) from the literature in MedLine with knowledge of protein-protein interactions to confirm if genes in GCP encode proteins that truly interact. We found three clusters in which the genes with the highest contribution encoded proteins that showed strong and specific interactions. After projecting the AIDs on a plane, two clusters could be discerned: Sjögren's syndrome-systemic lupus erythematosus, and autoimmune thyroid disease-type1 diabetes-rheumatoid arthritis. Our results support the common origin of AIDs and the role of genes involved in apoptosis such as CTLA4, FASLG, and IL10.

No MeSH data available.


Related in: MedlinePlus

Flowchart of the methodology. AITD: autoimmune thyroid disease, SS: primary Sjögren's syndrome, SLE: namely systemic lupus erythematosus, MS: multiple sclerosis, RA: rheumatoid arthritis, T1D: type 1 diabetes, and SSc: systemic sclerosis.
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Related In: Results  -  Collection


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fig1: Flowchart of the methodology. AITD: autoimmune thyroid disease, SS: primary Sjögren's syndrome, SLE: namely systemic lupus erythematosus, MS: multiple sclerosis, RA: rheumatoid arthritis, T1D: type 1 diabetes, and SSc: systemic sclerosis.

Mentions: Our analysis was made by using experimental knowledge of protein-protein interaction to evaluate the top ranked genes, which had been found through the CP approach to mine the biomedical literature (Figure 1).


The autoimmune tautology: an in silico approach.

Cifuentes RA, Restrepo-Montoya D, Anaya JM - Autoimmune Dis (2012)

Flowchart of the methodology. AITD: autoimmune thyroid disease, SS: primary Sjögren's syndrome, SLE: namely systemic lupus erythematosus, MS: multiple sclerosis, RA: rheumatoid arthritis, T1D: type 1 diabetes, and SSc: systemic sclerosis.
© Copyright Policy - open-access
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3303588&req=5

fig1: Flowchart of the methodology. AITD: autoimmune thyroid disease, SS: primary Sjögren's syndrome, SLE: namely systemic lupus erythematosus, MS: multiple sclerosis, RA: rheumatoid arthritis, T1D: type 1 diabetes, and SSc: systemic sclerosis.
Mentions: Our analysis was made by using experimental knowledge of protein-protein interaction to evaluate the top ranked genes, which had been found through the CP approach to mine the biomedical literature (Figure 1).

Bottom Line: Thus, our aim was to determine the main shared genes and to what extent they contribute to building clusters of AIDs.We found three clusters in which the genes with the highest contribution encoded proteins that showed strong and specific interactions.Our results support the common origin of AIDs and the role of genes involved in apoptosis such as CTLA4, FASLG, and IL10.

View Article: PubMed Central - PubMed

Affiliation: Center for Autoimmune Diseases Research (CREA), School of Medicine and Health Sciences, Universidad del Rosario, Carrera 24, No. 63-69 piso 3, Bogotá, Colombia.

ABSTRACT
There is genetic evidence of similarities and differences among autoimmune diseases (AIDs) that warrants looking at a general panorama of what has been published. Thus, our aim was to determine the main shared genes and to what extent they contribute to building clusters of AIDs. We combined a text-mining approach to build clusters of genetic concept profiles (GCPs) from the literature in MedLine with knowledge of protein-protein interactions to confirm if genes in GCP encode proteins that truly interact. We found three clusters in which the genes with the highest contribution encoded proteins that showed strong and specific interactions. After projecting the AIDs on a plane, two clusters could be discerned: Sjögren's syndrome-systemic lupus erythematosus, and autoimmune thyroid disease-type1 diabetes-rheumatoid arthritis. Our results support the common origin of AIDs and the role of genes involved in apoptosis such as CTLA4, FASLG, and IL10.

No MeSH data available.


Related in: MedlinePlus