Team:Heidelberg/Modeling
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===Model Concepts=== | ===Model Concepts=== | ||
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[[Image:LowthreePrime.png|thumb|Consider low 3' score concept: This model concept takes into consideration, that binding sites with a 3'-score under 3 did not show a significant change in knockdown efficiency compared to a control with only seed pairing {{HDref|Grimson et al., 2007}}. This is realized by rule number 6.]] | [[Image:LowthreePrime.png|thumb|Consider low 3' score concept: This model concept takes into consideration, that binding sites with a 3'-score under 3 did not show a significant change in knockdown efficiency compared to a control with only seed pairing {{HDref|Grimson et al., 2007}}. This is realized by rule number 6.]] | ||
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+ | Strength: general prediction, no dependency on conditions. By [normalization strategy] | ||
We came up with different concepts of what kind of input parameters to integrate into the fuzzy inference model and how to evaluate them. Therefore we parameterized the [https://2010.igem.org/Team:Heidelberg/Modeling/trainingset properties of a large set of binding sites] according to various different BS characteristics. | We came up with different concepts of what kind of input parameters to integrate into the fuzzy inference model and how to evaluate them. Therefore we parameterized the [https://2010.igem.org/Team:Heidelberg/Modeling/trainingset properties of a large set of binding sites] according to various different BS characteristics. | ||
The targetscan_50_context_scores – Algorithm {{HDref|Rodriguez et al., 2007}} which evaluates binding sites in respect to 3'-pairing and AU-content gives out a score that seems appropriate to distinguish especially between endogenous miRNA like binding sites. A more detailed description on the concept of binding site parameterization can be found under [https://2010.igem.org/Team:Heidelberg/Modeling/trainingset Model Training Set]. | The targetscan_50_context_scores – Algorithm {{HDref|Rodriguez et al., 2007}} which evaluates binding sites in respect to 3'-pairing and AU-content gives out a score that seems appropriate to distinguish especially between endogenous miRNA like binding sites. A more detailed description on the concept of binding site parameterization can be found under [https://2010.igem.org/Team:Heidelberg/Modeling/trainingset Model Training Set]. | ||
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===miRockdown on miBEAT=== | ===miRockdown on miBEAT=== |
Revision as of 18:19, 26 October 2010
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