PMC:4979054 / 11854-12705 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/4979054","sourcedb":"PMC","sourceid":"4979054","source_url":"https://www.ncbi.nlm.nih.gov/pmc/4979054","text":"2.5. Data Extraction, Normalisation and Comparisons\nRaw microarray data were extracted from scanned images by using the Feature Extraction software (version 10.7.31; Agilent) [26]. Background normalization was carried out using the normexp algorithm whereas normalization between the samples was carried out using quantile normalization [27,28]. Both normalization steps were implemented using the R package of limma (Linear Models for Microarray Data, version 2.13.1) [29]. The remaining parameters in limma were set to default value. For an expression difference to be determined as statistically significant, the log fold change must be ≥0.6 and false discovery rate (FDR) ≤ 0.05. Comparisons of selected candidates between oil palm mesocarp, rice and the Arabidopsis microarray were carried out based on the normalized signal intensities produced.","divisions":[{"label":"Title","span":{"begin":0,"end":51}}],"tracks":[{"project":"2_test","denotations":[{"id":"27600348-16712727-69481535","span":{"begin":338,"end":340},"obj":"16712727"},{"id":"27600348-17720982-69481536","span":{"begin":341,"end":343},"obj":"17720982"}],"attributes":[{"subj":"27600348-16712727-69481535","pred":"source","obj":"2_test"},{"subj":"27600348-17720982-69481536","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"2_test","color":"#a3ec93","default":true}]}]}}