AGGRESCAN is based in the use of a scale of amino acid aggregation propensities derived from experimental intracellular aggregation assays in living cells in the presence of the intact protein quality control machinery [25], [32], [33].
Our curated database contains 80 physico-chemical propensities, derived from experimental data [e.g. hydrophobicity (Black and Mould, 1991; Bull and Breese, 1974; Fauchere and Pliska, 1983)] and statistics on computational tools.
Thomas et al. [ 56] used a projector operator technique to show that, if fast reactions do not affect slow species – a condition which is not generally satisfied when the QSSA can be applied – then the propensities derived from the deterministic QSSA can be used to provide an accurate linear noise approximation.
(B ) Consensus motif for high readthrough propensity (RTP) derived from the predictive model.
The correlation between the propensity scores derived from SCMMTP and amino acid composition is evaluated with the Pearson correlation coefficient (R value).
The propensity p0are derived from the corresponding reaction rate, k, by dividing the latter by the initial cell volume, p0= k/ V0.
Also, by scoring experimentally-verified antigen sequences with residue epitope propensity scores derived from the SVM prediction outputs, annotated epitope and non-epitope regions on the antigens could be discriminated effectively.
Precision of effect estimates was evaluated from the width of the 95% CIs. 15 Some end points were rare relative to the number of factors that needed to be controlled, so propensity scores (derived from logistic regression models) were used to enhance efficiency of analytic control of confounding.
Our matched comparison cohort was identified through propensity scores derived from health insurance claims so that it was not only contemporaneous with the tegaserod initiator cohort, but also was similar to it with respect to many baseline characteristics including demographics, diagnoses, procedures, drugs, and healthcare utilization.
