Help:Tutorial:Step 6

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Revision as of 17:45, 23 January 2013 (view source) Mkutmon (Talk | contribs) m (updated point 5 - degradation shape is now under basic shapes in the object tab and not a shape type of a rectangle anymore.) ← Previous diff		Current revision (18:44, 14 November 2018) (view source) Khanspers (Talk | contribs) (replaced content)
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-	__NOEDITSECTION__	+	This page has been retired, current tutorial content is available [[Help:Tutorial|here]].
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-	{{Template:TutorialNavigate|7}}	+
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-	== Target genes are activated by the E-box element ==	+
-	After the Clock/Bmal1 dimer binds to the E-box element, transcription of several target genes are activated. This simplified version of the Circadian clock pathway, will restrict to the mPer/mCry genes, which will act as a negative feedback loop. As long as Per1 or Per2 exist as monomers, they will be phosphorylated by casein kinase 1 delta or epsilon, followed by degradation. In the pathway drawing we simplify it a bit by leaving out the phosphorylation event, resulting in the following representation:	+
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-	{|class=prettytable	+
-	|{{TutorialImage|transcription_degradation.png}}	+
-	|}	+
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-	{{TutorialVideo|gCuCiW2IvGE|360|Drawing the transcription of mPer/mCry<br> and degradation of mPer}}	+
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-	==== 1. Stack the mCry/mPer DataNodes ====	+
-	To illustrate that the mCry/mPer genes are activated by the E-box element, we can stack them below the 'Gene' label. Place the mPer/mCry DataNodes below the 'Gene' label and stack them in two vertical pairs, using the {{TutorialImage|stackverticalcenter.gif}} ''stack vertically'' button. Group each stacked pair.	+
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-	==== 2. Copy the gene-products ====	+
-	The genes will be translated into proteins, to show this on the pathway, copy the stacked genes and move them to the right of the stacked DataNodes.	+
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-	==== 3. Draw a line from the genes to the gene-products ====	+
-	To illustrate that the genes are translated into proteins, we draw a dashed arrow from each pair of genes to the copied pair. Connect the start and end points to the groups.	+
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-	==== 5. Create a degradation shape ====	+
-	As long as Per1 or Per2 is not dimerized with Cry1 or Cry2, it will be degraded. We can indicate degradation by using the ''degradation'' shape:	+
-	{|class=prettytable	+
-	|{{TutorialImage|degradation.png}}	+
-	|}	+
-	You can find this shape in under '''Basic Shapes''' in the Objects Tab.	+
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-	==== 6. Draw an arrow from the mPer DataNodes to the degradation shape ====	+
-	To show that the mPer proteins are degraded, draw an dashed arrow from the two mPer DataNodes to the degradation shape. Connect the start of this line to group 2.1 to specify that only the mPer proteins are degraded.	+
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-	{{Template:TutorialNavigate|7}}	+

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Current revision

This page has been retired, current tutorial content is available here.