PMC:5003436 / 15897-17088 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/5003436","sourcedb":"PMC","sourceid":"5003436","source_url":"https://www.ncbi.nlm.nih.gov/pmc/5003436","text":"2.7. Data Analysis\nObtained fluorescent signals and the surrounding background intensity were calculated by superimposing a grid of circles (midtal_ver32_20110429.gal or MIDTAL_V3.3.gal) onto the scanned image using the GenePix 6.0 software. First results were processed through the phylochip analyzer program to generate a hierarchy file to establish the hierarchical levels of the probes on the chip [19]. The hierarchy file and hybridization results were then progressed with the GPR-Analyzer version 1.27 and the hierarchy file version 1.06 [20]. A signal-to-noise ratio (S/N ratio) above two was taken as a cutoff for a positive signal. To compare values from different hybridizations, signals were normalized using the internal control DunGS02_25_dT (corresponds to Dunaliella tertiolecta), and replicates averaged. The mean of the total signal intensity and its standard deviation (SD) for the replicates of each probe, which are depicted in the graphs below, can be found in supplementary S2. All microarray results were uploaded to the MIDTAL database at http://www.mba.ac.uk/midtal. Specific instructions can be found in the MIDTAL manual [14] to open a new account from this site.","divisions":[{"label":"Title","span":{"begin":0,"end":18}}],"tracks":[{"project":"2_test","denotations":[{"id":"27605178-21585726-69479553","span":{"begin":403,"end":405},"obj":"21585726"}],"attributes":[{"subj":"27605178-21585726-69479553","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"2_test","color":"#bd93ec","default":true}]}]}}