Any glandular cells with trefoil factor 3 staining were considered as positive and to make the result as robust and objective as possible we used no intensity cut offs.
λ, optimal shrinkage intensity; qval, cut off for the partial correlation (the threshold is adjusted so as to ensure that all well-studied breast cancer marker genes are included in the networks); α, power-law exponent; Qmax, maximum modularity score; LOO-CV, Leave-one-out cross-validation.
Mr. Masters notices that he "often talks about previous events as though he were studying a damaged photograph pixel by pixel"; part of the image always seems to be missing, while other bits are recalled in high-intensity detail, cut off from all other context.
For the complete computed "deterministic" network the scale-free property holds if a realistic intensity cut-off is employed during its build-up, thus introducing "stochasticity".
Presently available UV-sources used for material tests do not allow the irradiation with wavelengths smaller than about 115 nm where common Deuterium lamps show an intensity cut-off.
Oberacher et al[71, 72] tackled the problem of low reproducibility of metabolite CID fragmentation using a dynamic intensity cut-off, counting neutral losses, and optimizing the scoring formula.
Multiple segmentation algorithms exist, e.g. freehand algorithms (FH), thresholding-based algorithms (e.g. fixed thresholding at 40% of maximum intensity cut-off [40P]), and algorithms based on probabilistic classification of voxels into tumour or background (e.g. fuzzy locally adaptive Bayesian [FLAB]) [9].
The analysis algorithms, which were used to establish the fluorescence intensity cut-offs and to define fluorescent objects, also had a significant impact on overall assay quality.
We determined an intensity cut-off of 410 with a 5% false positive rate (see additional file 9).
A signal intensity cut-off could therefore be determined for each array, which reduces these hybridizations with more than 95%.
