Epigraph is an efficient graph-based algorithm for designing vaccine antigens to optimize potential T-cell epitope (PTE) coverage. Epigraph vaccine antigens are functionally similar to Mosaic vaccines, which have demonstrated effectiveness in preliminary HIV non-human primate studies. In contrast to the Mosaic algorithm, Epigraph is substantially faster, and in restricted cases, provides a math...

Epigraph is a recently developed algorithm that enables the computationally efficient design of single or multi-antigen vaccines to maximize the potential epitope coverage for a diverse pathogen population. Potential epitopes are defined as short contiguous stretches of proteins, comparable in length to T-cell epitopes. This optimal coverage problem can be formulated in terms of a directed grap...

............................................................................................................................ iii Dedication .......................................................................................................................... v Epigraph ..............................................................................................................................

A new signal processing framework based on the projections onto convex sets (POCS) is developed for solving convex optimization problems. The dimension of the minimization problem is lifted by one and the convex sets corresponding to the epigraph of the cost function are defined. If the cost function is a convex function in RN the corresponding epigraph set is also a convex set in RN+1. The ite...

A new signal processing framework based on the projections onto convex sets (POCS) is developed for solving convex optimization problems. The dimension of the minimization problem is lifted by one and the convex sets corresponding to the epigraph of the cost function are defined. If the cost function is a convex function in RN the corresponding epigraph set is also a convex set in RN+1. The ite...

EpiGRAPH•regression : A toolkit for (epi-)genomic correlation analysis and prediction of quantitative attributes

This paper develops an approach for efficiently solving general convex optimization problems specified as disciplined convex programs (DCP), a common general-purpose modeling framework. Specifically we develop an algorithm based upon fast epigraph projections, projections onto the epigraph of a convex function, an approach closely linked to proximal operator methods. We show that by using these...

Abstract. In this paper, we define the notion of C*-affine maps in the unital *-rings and we investigate the C*-extreme points of the graph and epigraph of such maps. We show that for a C*-convex map f on a unital *-ring R satisfying the positive square root axiom with an additional condition, the graph of f is a C*-face of the epigraph of f. Moreover, we prove som...