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Showing posts from May, 2011

Collecting meta data from Entrez

It's often to show growth of sequence data of interest when one writes research proposal. For an example, you requires to collect number sequences from agricultural organisms and compare it to human if you want to explain how sequences regarding to agricultures grow faster than human data. Usually the gross statistics of GenBank , is posted on NCBI's Web page, might be not enough to describe details of the data growth. By using show index , preview , and limit functions in Entrez, you can quickly collect meta information like number of entries. dbE ST Total records Records for last 3 years Growth rate for last 3 years human 8,315,231 177,492 2.1% mouse 4,853,547 3,289 0.1% cattle 1,559,494 45,232 2.9% pig 1,620,570 144,207 8.9% chicken 600,423 1,041 0.2% insects 4,493,137 1,864,326 41.5% bacteria 1,266 1,012 79.9% fungi 2,893,583 1,508,814 52.1% plant 22,633,681 7,290,397 32.2% To complete the above table, we need to count total records for each species in dbES