To provide a consistent interface, all the queries are summaries and the following properties can be used as selecting criteria: encoding, chemistry, instrument, softwareOnInstrument, typeOf Experiment, pair, sampleName, lane, barcode, run.
A path is progressively evaluated in terms of an optimality criteria, encoded by a set of score functions based on the set of overlaps along the lay-out.
Indeed, when a relevant gene fails to meet just one of the criteria encoded in the filter, it becomes a false negative, and this prevents the ability to detect genes that are actually involved in the disease, but with mechanisms not been previously reported in literature.
Using these criteria, sequences encoding the genes and sequences derived from intergenic regions resulting in no match to the nr protein database were identified, using manual curation to eliminate obviously spurious results (e.g., those resulting from low-complexity alignments).
These findings have direct support from studies of neural firing during timing studies showing that timed criteria are encoded by separate neural populations, possibly activated by independent populations of cortical oscillators, which can be differentially stopped/reset based on relative activity in STR and PFC.
Using the SignalP3.0 program with stringent criteria, 142 contigs encoding putative secreted proteins were identified in the 2,780 S.
Amongst other genes, which gave signals not meeting stringent criteria, was HRH4 encoding histamine H4 receptor, which is important in pruritis [ 41].
The mismatch repair (MMR) pathway meets these criteria: the gene encoding the DNA MMR protein (msh6, PF3D7_0505500) is a functional partner of pfcrt in CQS but not CQR parasites and this pathway can be induced by small molecules such as methyl methanesulfonate (MMS) [ 60].
Each criterion is encoded by a matrix C, with the same dimension of the grid, where each entry indicates the state of the corresponding cell in (mathcal{G}).
To minimize arbitrariness and subjectivity in the measurement of validity, qualitative expert judgments for each criterion are encoded into a discrete numerical scale of "0" (weak) to "4" (strong) with linguistic descriptions (modes) of each level on the scale [20] (see Table 2).
We identified six genes meeting the criteria of unique-copy, encoding either known-function or hypothetical proteins, and identical amplification among all lines on genomic DNA templates.
