The CCDS proteins that do not overlap with our ortholog dataset relates to our method of determining ortholog sets, which tends to omit paralogous gene clusters and large gene families with notable species expansion differences (e.g., olfactory receptors).
It may be due to our dataset is related with proinflammatory effects and Cui's dataset is focused on cancer signaling.
Next, we observed that nearly 40% of the changes in the expression of H19 in our dataset were related to changes in ERα expression (Fig. 6B, r=0.73).
The accuracy of how well the extracted dataset relates to the reference dataset [62, 64] is examined.
This Twitter dataset relates to the hashtag #coup_suffocates_Taiz (2241 actors and 4419 connections) that comprises a big connected component (containing 1418 actors).
Of particular interest in our dataset were pathways related to pigmentation and melanogenesis.
The absence of specific changes associated to the TP53 status in our dataset may be related to sampling differences.
Furthermore, 88% of the transcriptional response of the induced genes in our dataset can be related to the potential activities of just three proteins: Hap4, Cat8 and Mig1.
This means that 75% of the transcriptional response of the genes in our dataset could be related to the activities of just three transcription factors, which in turn would account for 88% of the response of the induced set.
In addition to the 27 cytokinin-related genes, 104 transcripts were identified in our dataset, including 23 abscisic acid-related genes, 32 auxin-related genes, 11 brassinosteroid-related genes, 11 ethylene-related genes, nine gibberellin-related genes, 11 jasmonic acid-related genes, and seven salicylic acid-related genes (Additional file 3).
