Thus, the key question is [ 1, 20]: in the genome-wide compendium of phylogenetic trees, that we denoted the Forest Of Life (FOL), can we detect any order, any preferred tree topology (branching order) that would reflect a consensus of the topologies of other trees?
The result was an extensive compendium, the Valor Ecclesiasticus.
We envision that the groundbreaking technical advances for detection of signatures in genome- and exome-wide catalogs of somatic mutations from thousands of tumors will enable the assembly of a wide-ranging compendium of mutation signatures from diverse cancer types and multiple geographical regions.
This wide-ranging compendium includes short stories, song lyrics ("I'll See You Again," "Mad About the Boy") and scenes from his plays and screenplays ("Blithe Spirit," "In Which We Serve").
In summary, through high-throughput sequencing of a polyA-neutral library, we were able to assemble a genome-wide RNA expression compendium.
However, to account for the latest NVP-CFC218 pharmacological characterization on cell lines and to take advantage of a larger training data set, the naïve Bayes classifier was trained on a wider cell line compendium (634 cell lines, 77 and 557 of which being NVP-CFC218-sensitive and NVP-CFC218-insensitive, respectively).
This genome-wide polyA-neutral expression compendium demonstrates the richness of ncRNA expression, their high expression patterns, their function-specific expression patterns, and is publicly available.
We used the Connectivity Map, a compendium of genome-wide transcriptional data from cultured human cells treated with bioactive small molecules, to determine a rapamycin response signature.
MNI was first applied to a compendium of genome-wide GEPs measured in yeast (S. cerevisiae) to identify the molecular targets of anti-fungal compounds [ 8].
Moreover, expression plasticity (responsiveness of S. cerevisiae genes to change in external conditions) and divergence (among closely related species) were also quantified with the use of a compendium of genome-wide expression profiles in four yeasts [ 4].
Our ribosome profiling data add an important component to the rich compendium of genome-wide data, including transcript abundance (Bozdech et al., 2003), mRNA decay (Shock et al., 2007), splicing (Sorber et al., 2011), and proteomics for this parasite (Le Roch et al., 2004; Foth et al., 2011).
