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subbind - biohacker's substance binding scraper

 what is bindingdb.org:

bindingdb.org is a meta search engine that fetch data from other search engine like PSPP,
i tried to find a easy way to know the median binding of a substance using bindingdb.org but the data was hard to use , so i developed a addon that will scrap the data and give you easy way to know the median binding of any substance

how to use:

download the addon from here
then go here
 
you will see like this


or by contextual menu


the addon will travel you pages automatically and evently show something like this

you can click on Target/Host to sort the table using that

Ki nM = mean how well the substance can bind to a receptor =the lower the better

IC50 = Half-maximal inhibitory concentration = the lower the better = mean antagonist

EC50 = Half maximal effective concentration = the lower the better = mean agonist

Kd nM = The equilibrium dissociation constant. represents the concentration of radioligand. occupying half of the maximum receptor. = the lower the better = its mean the how well the drug can bind to receptor (like ki nm)

Emax/ imax = efficacy = the higher the better = its not available in bindingdb.org


if you want to calculate selectivity then copy the content

go to excel and past that content, you will have something like this

select receptor Ki nM like this


in bottom corner of excel you will see the median Ki value for that target



features:
-convert scientific numbers to normal
-remove additions text keep nM
-setting efficacy
-delete non human study if human study is available for specific receptor
-add efficacy in ki from IC/EC50
-deleting other value if ki available
-table sorting
- fetch all data instead of 50 everytime
-automatically detect agonist/antagonist
-give alert when data was not fully loaded

change log:
v1.9
-ported as addon with full automation and new features
v0.5
-fix problem after bindingdb.org last update (now always visit https version of the site)
v0.5
-fix rare case where the script can't fetch all results in one time
-better javascript codes with the same function
v0.4
-fix "delete non human study if human study is available for specific receptor" button not working after sorting the table
-add link to check update for this script
v0.3
-fix the button "click here to start fetching data and wait.." don't work when the substance has less then 50 result
v0.2
-better style in some browsers
v0.1
-first version
-table sorting when click on first table row, you can sort alphabetically by Target/Host, species, KinM, IC50nM, kd nm, EC50nM
-give alert when data was not fully loaded
-set a link to fetch all data instead of 50 everytime
-delete non human study if human study is available

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