calculation of sensitivity and specificity

happy2000 · 06-07-2011, 07:33 AM

Hello everyone,
I want to do an evaluation of a pattern search tool. For that I want to calculate sensitivity and specificity.
How can I determine the true positives and false positives, the real pattern (verified experimentally) are not all known. And how can I calculate the sensitivity and specificity.
Cordially

JohnK@Genome_Quest · 06-07-2011, 01:38 PM

If you're experimentally verifying the real patterns, I imagine you could confirm your True Positives by comparing them to your experimentally-validated pattern data. As for your False Positives, they might be those that don't overlap with your experimentally-validated data. I think wikipedia gives a good article on how to calculate sensitivity/specificity as well as the calculations:

http://en.wikipedia.org/wiki/Sensiti...nd_specificity

happy2000 · 06-07-2011, 01:42 PM

Thank you very much JohnK@Genome

happy2000 · 06-10-2011, 06:26 AM

Hello,
For confirm True Positives by comparing them to experimentally-validated pattern data.
I must put the annotated binding sites in their genomic context.
Please, have you any idea how to do that ?
Cordially

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06-07-2011, 07:33 AM	#1
happy2000 Junior Member Location: fr Join Date: May 2011 Posts: 6	calculation of sensitivity and specificity Hello everyone, I want to do an evaluation of a pattern search tool. For that I want to calculate sensitivity and specificity. How can I determine the true positives and false positives, the real pattern (verified experimentally) are not all known. And how can I calculate the sensitivity and specificity. Cordially

06-07-2011, 01:38 PM	#2
JohnK@Genome_Quest Junior Member Location: Worcester, MA Join Date: Jun 2011 Posts: 7	If you're experimentally verifying the real patterns, I imagine you could confirm your True Positives by comparing them to your experimentally-validated pattern data. As for your False Positives, they might be those that don't overlap with your experimentally-validated data. I think wikipedia gives a good article on how to calculate sensitivity/specificity as well as the calculations: http://en.wikipedia.org/wiki/Sensiti...nd_specificity

06-07-2011, 01:42 PM	#3
happy2000 Junior Member Location: fr Join Date: May 2011 Posts: 6	Thank you very much JohnK@Genome

06-10-2011, 06:26 AM	#4
happy2000 Junior Member Location: fr Join Date: May 2011 Posts: 6	Hello, For confirm True Positives by comparing them to experimentally-validated pattern data. I must put the annotated binding sites in their genomic context. Please, have you any idea how to do that ? Cordially