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Upon quality control, probes were annotated with the current annotation files (version 32) for the proper array format.
However, the proteins with shared ancestral GO terms which are not annotated with a sibling GO term are susceptible to be annotated with the current GO term.
If there are n datasets, and each reports a correlation of xi for a gene pair, the final correlation value is computed by corr = Σ i(x i * s i /Σ i(s i) where i ∈ [1, 2,..., n], and si represents the number of samples in data set i. Every interaction in DroID is annotated with the current gene expression correlation value for that pair.
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The aim is not simply to apply every possible GO term to a gene product, but rather to annotate with the most current and direct information, in the context of all available knowledge.
The current tool exports coded data from synoptic reports that are annotated with the SNOMED CAP vocabulary.
Variants were annotated with the Ensembl Variant Effect Predictor62.
They are all heavily annotated, with the most gruesome passages all dutifully underlined.
For those SVs that occurred within gene regulatory domains, we annotated with the nearest gene name.
The putative functional effects of SNPs and indels were annotated with the ANNOVAR package99.
Lists of altered genes can then by annotated with current annotation provided by CEBS or projected onto biological pathways from groups like BioCarta, KEGG, and the Gene Ontology Consortium.
Major discordances annotated in the current build of rice pseudomolecules.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com