Computational programs for predicting RNA sequences with desired folding properties have
been extensively developed and expanded in the past several years. Given a secondary …

RNA aptamers are ribonucleic acids that bind to specific target molecules. An RNA aptamer
for a disease-related protein has great potential for development into a new drug. However …

De novo molecular design attempts to search over the chemical space for molecules with
the desired property. Recently, deep learning has gained considerable attention as a …

We describe a framework for designing the sequences of multiple nucleic acid strands
intended to hybridize in solution via a prescribed reaction pathway. Sequence design is …

Designing RNAs that form specific secondary structures is enabling better understanding
and control of living systems through RNA-guided silencing, genome editing and protein …

Riboswitches that couple binding of ligands to conformational changes offer sensors and
control elements for RNA synthetic biology and medical biotechnology. However, design of …

An RNA design algorithm takes a target RNA structure and finds a sequence that folds into
that structure. This is fundamentally important for engineering therapeutics using RNA …

RNA is involved in a wide-range of important molecular processes in the cell, serving
diverse functions: regulatory, enzymatic, and structural. Together with its ease and …

We describe an algorithm for designing the equilibrium base-pairing properties of a test tube
of interacting nucleic acid strands. A target test tube is specified as a set of desired “on …

Motivation: RNA sequence design is studied at least as long as the classical folding
problem. Although for the latter the functional fold of an RNA molecule is to be found, inverse …