Abstract
Adipogenesis is the process of cell differentiation through which preadipocytes become adipocytes. Lots of research is currently ongoing to identify genes, including their gene products and microRNAs, that correlate with fat cell development. However, information fragmentation hampers the identification of key regulatory genes and pathways. Here, we present a database of literature-curated adipogenesis-related regulatory interactions, designated the Adipogenesis Regulation Network (ARN, http://210.27.80.93/arn/), which currently contains 3101 nodes (genes and microRNAs), 1863 regulatory interactions, and 33,969 expression records associated with adipogenesis, based on 1619 papers. A sentence-based text-mining approach was employed for efficient manual curation of regulatory interactions from approximately 37,000 PubMed abstracts. Additionally, we further determined 13,103 possible node relationships by searching miRGate, BioGRID, PAZAR and TRRUST. ARN also has several useful features: i) regulatory map information; ii) tests to examine the impact of a query node on adipogenesis; iii) tests for the interactions and modes of a query node; iv) prediction of interactions of a query node; and v) analysis of experimental data or the construction of hypotheses related to adipogenesis. In summary, ARN can store, retrieve and analyze adipogenesis-related information as well as support ongoing adipogenesis research and contribute to the discovery of key regulatory genes and pathways.
Highlights
The results indicate that Pan et al.[13] demonstrated that both E2F1 and CEBPd are involved in the transcriptional regulation of PPARg in cancer cells in the process of apoptosis
Researchers can design experiments to verify the effects of E2F1 and CEBPd on adipogenic differentiation by PPARg
There is ongoing research to detect genes or pathways that are frequently altered in adipogenesis
Summary
11.7 pparg expressed microRNAs. First, we need to rapidly screen miRNAs to identify those that are highly correlated with adipogenesis. ‘ARN Analysis’ is helpful for identifying these intersections, and we can obtain the results shown in Table 4 (Analysis steps: see Supplementary materials “ARN Handbook” - Example 4). We developed the ARN database to provide a review of the current state of adipogenesis research, and we have made this information accessible to researchers.
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