Both signalling and response datasets were organized in data structures in the form of 5-D cubes using the DataRail software [ 35]; 4 of the dimensions of the cube correspond to the different experimental conditions (cell type, time point, stimuli treatment, inhibitor treatment) and the 5th to the measured readouts (response data and signalling data).
In this study, PI3K pathway activity was determined by measuring levels of p-Akt and p-S6 ribosomal protein as pathway readouts in response to myeloid modulators, FLT3L, SCF and SDF-1α.
As the authors and Dr. Bauman state, the major difficulty in the choice of a given adjuvant treatment, including EGFR inhibitors, is the lack of readouts for response stratification.
From this extraction we selected all basal readouts and 12 of the most prominent response readouts representing responsive signaling nodes.
Using a well-established readout of cellular response, calcium signaling, allowed us to identify novel correlates between mechanical stimulation and cell responses.
We suggest to apply the proposed nonlinear optical diagnostics approach based on the oxygen vacancy excitation within the picosecond laser pulses at 1,064 nm (1.17 eV) and NLO refractive index response readout.
This, together with the development of novel computational methods suitable for the analysis and integration of very large multilevel datasets [5], have contributed to demonstrate the usefulness of molecular fingerprinting in predicting toxicity from an early readout of the response to chemical exposure [5] [9].
Another example where viral replication may not be the best readout of host response differences is icSARS-CoV.
We have therefore taken advantage of the genetic differences between responding cells and the leukaemia cell line by using the combined repertoires of membrane expressed and cross presented allo-antigens as a sensitive readout for immunological response in our experiments.
One reason to include patients with neoadjuvant treatments in this pilot study was the opportunity to assess the size of the primary tumor as a direct readout of clinical response.
