PMC:2041973 / 68173-69265 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/2041973","sourcedb":"PMC","sourceid":"2041973","source_url":"http://www.ncbi.nlm.nih.gov/pmc/2041973","text":"Detection of AS by RT-PCR.\ncDNAs were generated from total RNA with Superscript III reverse transcriptase (Invitrogen). PCR reactions were performed with primer pairs designed for AS targets (annealing at 58 °C and amplification for 30 or 35 cycles). PCR products were resolved on either 1.5% or 3% agarose gel in TBE. The Ethidium Bromide-stained gels were scanned with Typhoon 8600 scanner (Molecular Dynamics) for quantification. The number of true positives (TP; false negatives, FN) was computed as the number of REAP[+] (REAP[−]) exons that were validated by RT-PCR as AS. The number of true negatives (TN; or FPs) was computed as the number of REAP[−] (REAP[+]) exons that were validated by RT-PCR as constitutively spliced. The true (false) positive rate was computed as TP (FP) divided by the total number of REAP[+] exons in the experimentally validated set. The true (false) negative rate was computed as the TN (FN) divided by the total number of REAP[−] exons in the experimentally validated set. Sensitivity was computed as TP/(TP+FN) and specificity was computed as TN/(FP+TN).","divisions":[{"label":"Title","span":{"begin":0,"end":26}}],"tracks":[{"project":"CellFinder","denotations":[{"id":"T167","span":{"begin":27,"end":32},"obj":"CellComponent"},{"id":"T168","span":{"begin":84,"end":105},"obj":"GeneProtein"},{"id":"T169","span":{"begin":59,"end":62},"obj":"CellComponent"}],"attributes":[{"subj":"T167","pred":"source","obj":"CellFinder"},{"subj":"T168","pred":"source","obj":"CellFinder"},{"subj":"T169","pred":"source","obj":"CellFinder"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"CellFinder","color":"#bcec93","default":true}]}]}}