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Norway

Hypothesis Center

About


dkNET is partnering with the Signaling Pathways Project (SPP) knowledge base, which has developed a powerful new meta-analysis platform, consensomes, that surveys across millions of DK mission-relevant biocurated 'omics data points to make high-confidence connections between genomic targets, their upstream regulatory pathways, and the disease states in which their expression is altered. SPP simplifies powerful data mining and hypothesis generation strategies for the bench researcher, putting a 200 million data point-strong universe of 'omics data points at their fingertips.


  • Search for genes with important roles in DK-relevant receptors, enzymes, organs and tissues using our *Consensomes approach:

    • Transcriptomic Consensomes examples:

  • Chip-Seq Consensomes examples:

*Consensomes are list of genes ranked according to a meta-analysis of their differential expression in publicly archived transcriptomic datasets involving perturbations of a specific signaling pathway in a given biosample category. Consensome are intended as a guide to identifying those genes most consistently impacted by a given pathway in a given tissue context.


  • Define novel DK-relevant signaling pathways using Regulation Reports


  • Search by single gene examples

  • Search by Gene Ontology terms examples


Read more:

Becnel, LB et al. Discovering relationships between nuclear receptor signaling pathways, genes, and tissues in Transcriptomine. Sci Signal. 2017 Apr 25;10(476). pii: eaah6275. doi: 10.1126/scisignal.aah6275.

Darlington, TF et al. Improving the discoverability, accessibility, and citability of omics datasets: a case report. J Am Med Inform Assoc. 2017 Mar 1;24(2):388-393. doi: 10.1093/jamia/ocw096

Ochsner S et al. The Signaling Pathways Project: an integrated 'omics knowledgebase for mammalian cellular signaling pathways. bioRxiv Preprint. 2018. doi: https://doi.org/10.1101/401729



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