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The Gene Expression Omnibus accession numbers of the ChIP-seq and RNA-seq datasets reported in this paper are GSE48560 and GSE48663.
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Predictions from the layered shell model have been validated using several out-of-plane experimental datasets reported in the literature.
The predictions of the layered shell model have been validated using several out-of-plane experimental datasets reported in the literature.
For CATRES-FAM and other datasets (reported in the Supplementary Materials), we used 10-fold cross-validation.
To provide a systems view of citrus host response to the HLB bacterial infection, the Pearson correlation coefficient (Pcc) method was used to infer the gene coexpression network using the four datasets reported in the four transcriptomic studies [ 5, 10- 12].
eGiven that these five disciplines do not represent each of the disciplines encompassed within the 'STEM' acronym, when referring to the dataset reported in this paper, we use the term 'science and math' disciplines.
The gene expression dataset reported in this publication is MIAME compliant and was deposited in the NCBI's Gene Expression Omnibus (GEO) database, NCBI [57] (GEO series accession number GSE23081).
For the dataset reported in this article, all computation times were determined on Intel E5540 Xeon CPU at 2.53 GHz.
Calculations for all the log Bayes Factors for the Ancestral Repeats dataset reported in this work were split over 20 processors, using the settings shown in Tables 2 and 3. Calculating one of these 20 integration intervals takes about 5 days on an Intel Xeon 2.4 Ghz processor.
A set of experiments has been executed using the datasets reported in Table 1.
Domeier and Nasby-Lucas [15] presented a limited treatment of the four long-term archival datasets reported in their study.
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