5/26/2023 0 Comments Microcosm database![]() Based on these resources, the database also integrates large-scale information about TF regulations on miRNAs through the prediction of TFBS on upstream sequences of miRNA precursors. ![]() The database is a large-scale resource which integrates information from multiple available databases: PAZAR, JASPAR and oPOSSUM (for TF regulations), miRBase, MicroCosm and (for miRNA target predictions), UniHI (for protein-protein interactions) and Ensembl (for gene annotations). Squares represent TFs, diamonds miRNAs and circles coding-gene targets. An additional advantage of the miRanda algorithm is the fact that it has previously been applied to five genome-sequenced fish species in the Ensembl MicroCosm database, thus facilitating comparative approaches in miRNA-target relationship analysis between fish species. Similarly, edges describe TF regulations (arrows) at DNA level, and miRNA regulations (blunt arrows) at RNA level. The establishment of microcosm models of the microbiome is an important goal for creating useful, yet experimentally tractable, microbial communities to understand systems’ properties and interactions. This Gene entity represents a target at multiple levels: a DNA sequence (TF regulations), a messenger RNA (miRNA regulations), or a protein (protein-protein interactions). In order to enrich the theoretical support of bioremediation of groundwater polluted by chlorinated hydrocarbons in China, the aquifer sediments and groundwater. The MycoCosm web portal provides data access, visualization, and analysis tools for comparative genomics of fungi. We then matched the OTUs to reference taxa in the complete SILVA database (version 132). ![]() The meta-regulation network model illustrates interactions between three biological entities, transcription factors (TF), non coding microRNA genes (miRNA) and coding-genes (Gene).
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