Comparison of Dot Plots and Melting Charts for design lab Water Strider synthesized results.

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Comparison of Dot Plots and Melting Charts for design lab Water Strider synthesized results.

All of the Water Strider round 1 synthesis results available on 10/18/11 (this did not include NUPACK design 02 which had not completed synthesis) are compared relating synthesis score to the designs Dot Plot (paring probabilities plot) and Melting Plot (% of unpaired bases vs temperature.) The question I wanted to address is whether there is a relationship between a designs synthesized score and the cleaness of the dot plot and/or the shape of the melt plot. I have included below the graphs for each design in descending order of the synthesis score. Designs with the same score are in no particular order.

Breakdown of scores:

Score: # of designs:

92: 1
86: 5
83: 3
81: 2
78: 1
73: 1
72: 1

General “eyeball” results:
1. Dot plot: Higher scoring designs have cleaner dot plots. The more cluttered the plots, the worse the score. One exception is the design SWSFAL (score 81) whose dot plot, though not the cleanest, is less cluttered than similar scoring designs.
2. Melting plot: Higher scoring designs tend to have melting plots that either have a general concave shape (rising slowly at the beginning and faster toward the end) or are relatively linear. Lower scoring designs tend to have convex shapes (rising quickly at the start and more flattening toward the end.) As with the dot plot, this is not absolute. Noteable exceptions are the designs SWSFAL (score 81) and NUPACK design 03 (score 73). However, there were no higher scoring designs with a convex shape melting plot.

Of course, idiosyncrosies can always make a design with favorable dot and melting plots fail, so these are certainly not the only criteria of successful designs. However, it is difficult to make a successful design that has a poor dot plot and melting plot.

Comparison of Dot Plots and Melting Charts for design lab Water Strider synthesized results.

All of the Water Strider round 1 synthesis results available on 10/18/11 (this did not include NUPACK design 02 which had not completed synthesis) are compared relating synthesis score to the designs Dot Plot (paring probabilities plot) and Melting Plot (% of unpaired bases vs temperature.) The question I wanted to address is whether there is a relationship between a designs synthesized score and the cleaness of the dot plot and/or the shape of the melt plot. I have included below the graphs for each design in descending order of the synthesis score. Designs with the same score are in no particular order.

Breakdown of scores:

Score: # of designs:

92: 1
86: 5
83: 3
81: 2
78: 1
73: 1
72: 1

General “eyeball” results:

Dot plot: Higher scoring designs have cleaner dot plots. The more cluttered the plots, the worse the score. One exception is the design SWSFAL (score 81) whose dot plot, though not the cleanest, is less cluttered than similar scoring designs.

Melting plot: Higher scoring designs tend to have melting plots that either have a general concave shape (rising slowly at the beginning and faster toward the end) or are relatively linear. Lower scoring designs tend to have convex shapes (rising quickly at the start and more flattening toward the end.) As with the dot plot, this is not absolute. Noteable exceptions are the designs SWSFAL (score 81) and NUPACK design 03 (score 73). However, there were no higher scoring designs with a convex shape melting plot.

Of course, idiosyncrosies can always make a design with favorable dot and melting plots fail, so these are certainly not the only criteria of successful designs. However, it is difficult to make a successful design that has a poor dot plot and melting plot.



























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slydog

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Posted 8 years ago

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slydog

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sorry about the repeated text.
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Edward Lane

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Sounds like another strategy market to me with convex melting plot= bad
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Joshua Weitzman

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this is what i had to do before the had the melt chart http://getsatisfaction.com/eternagame...
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slydog

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Thanks for the link. Good discussion.