Soybean miRNA Functional Network

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This site will no longer be updated and maintained from now on. The current services will continue to be provided and updated at the new database: SoyFN. We apologize for the inconvenience.

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Scientific classification
Kingdom: Plantae
(unranked): Angiosperms
(unranked): Eudicots
(unranked): Rosids
Order: Fabales
Family: Fabaceae
Subfamily: Faboideae
Genus: Glycine
Species: G. max
Binomial name
Glycine max
(L.) Merr.
Synonyms[1]
  • Dolichos soja L.
  • Glycine angustifolia Miq.
  • Glycine gracilis Skvortsov
  • Glycine hispida (Moench) Maxim.
  • Glycine soja sensu auct.
  • Phaseolus max L.
  • Soja angustifolia Miq.
  • Soja hispida Moench
  • Soja japonica Savi
  • Soja max (L.) Piper
  • Soja soja H.Karst.
  • Soja viridis Savi

SmiRFN

SmiRFN: Soybean(Glycine max) microRNA Functional Network is a comprehensive web tool about soybean microRNA functional Analysis. It contain all 555 mature miRNAs of the latest release of miRBase(Release 19: August 2012) . You can compute any pair of 555 soybean miRNAs and get their target 3'-UTRs. By useing CytoscapeWeb, you can easily view your interesting miRNAs in a network. Also, KEGG pathway, motif and genome browser are incorporated to analysis other types of function of miRNA and target genes of Soybean. [More... ]

All genome datasets are of the Williams 82(Glam 1.1).

 

Glycine max

The soybean (US) or soya bean (UK) (Glycine max) is a species of legume native to East Asia, widely grown for its edible bean which has numerous uses. The plant is classed as an oilseed rather than a pulse by the UN Food and Agricultural Organization (FAO).

Fat-free (defatted) soybean meal is a significant and cheap source of protein for animal feeds and many prepackaged meals;soy vegetable oil is another product of processing the soybean crop. For example, soybean products such as textured vegetable protein (TVP) are ingredients in many meat and dairy analogues. Soybeans produce significantly more protein per acre than most other uses of land.

Traditional nonfermented food uses of soybeans include soy milk, and from the latter tofu and tofu skin. Fermented foods include soy sauce, fermented bean paste, natto, and tempeh, among others. The oil is used in many industrial applications. The main producers of soy are the United States (35%), Brazil (27%), Argentina (19%), China (6%) and India (4%).Today, the United States is also the world's largest consumer of soybeans, with an average annual consumption of 45,313 TMT. The beans contain significant amounts of phytic acid, alpha-linolenic acid, and isoflavones.     [More...]

Main tools


miRFun miRFun is a method to compute the functional similatiy of Soybean (Glycine max.) miRNAs by taking fully into account both the functional similarity between their targets and the regulatory strengths they exert on their targets.

miRFun firstly measures the regulatory strength based on site accessibility and the functional similarity between the target genes of two miRNAs based on a gene functional network (GFN). And further infer the functional similarity for these two miRNAs by integrating these two critical factors.

miRFunNet miRFunNet was constructed firstly by measuring functional similarity of pairwise miRNAs taking fully account into bothe the regulatory strength based on site accessibility and the functional similarity between the target genes of two miRNAs based on a gene functional network (GFN). And secondly by setting a threshold to select the significant functional associations based on "Clustering coeffecient".

GFSAT The 'Gene Analysis Tool —GFSAT' is a web tool that can be used to Analysis the functional similarity of genes in the forms of "two genes", "two groups genes ", and "pairwise genes group" based on GO Annotation(GOA) and GO semantic similarity measurements. The semantic similarity measurements ultilized by GFSAT 1.1 are SSDD, G-SESAME and simUI now. Soon, more and more algorithms will be integrated into.

SoyFGN SoyFGN: Soybean Functional GeneNetwork is a network of soybean genes, constructed based on the functional similarity between gene pairs. The Functional similarity of pairwise genes were measured by SSDD based on their GO Annotations (GOA).

  

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