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Our aim is to introduce a framework that will assist in training and evaluation of event detection and summarization algorithms, regarding their accuracy in detecting salient events as well as for content analysis, with respect to the included annotation schemes.
The procedures involved in the curation included annotation of the original data using new MOPAC methods, updating the syntax of the CML documents used to express the data to ensure schema conformance and adding new metadata describing the entries together with a XML schema transformation to map the metadata schema to that used by the DataCite organisation.
We included annotation terms with a p-value (FDR-corrected) of < 0.01 containing between 5 and 500 genes.
A detailed listing and description of all included annotation sets is provided in Supplementary Material, Table S12.
We included annotation variables shown to be correlated with presence in the GWAS Catalog or that we believed likely to be so.
Illumina included annotation of SNPs located within 10 bps of the target CpG (SNP <10 bp, n = 36,535 probes) and those located within the remainder of the probe (SNP >10 bp, n = 59,892 probes).
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Level 2 responses (i.e., designs that included annotations) were also more prevalent in the students' redesigns, with a slight increase from the initial designs (from 60 to 64 %).
This included annotations for cancer, neurological diseases, and metabolic diseases (see Additional file 6).
DAVID analysis of all differentially expressed genes included annotations for cell adhesion and the ECM (see Additional file 1).
We included annotations based on all GO evidence codes in our analysis; ∼62% of the human GO annotations in our dataset were derived by automatic methods (IEA).
These included annotations associated with DNA structure and also haem/monooxygenases: which suggest a role of cytochrome P450s in the metabolism of these two organic chemicals.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com