Abstract: Techniques for assembly of genetic maps including de novo assembly of distance maps using multiple alignment consensus construction. Multiple map alignment can be performed on a defined bundle of fragment maps corresponding to biomolecule fragments to determine consensus events and corresponding locations. Fragment maps in the bundle can be removed when there is no overhang from the consensus events. When the subset of fragment maps in the bundle is less than a predetermined threshold, one or more additional fragment maps can be added based on fragment signatures, a consensus alignment score, and a pairwise alignment score. Techniques for multiple alignment can include generating a graph with edges and vertices representing each pairwise relation. An ordered set of sets of events best representing a multiple alignment reflecting all pairwise alignments can be generated by repeatedly randomly removing edges and combining vertices to identify a min cut of the graph.

Abstract: Methods for sequencing a biopolymer by forming local ternary complexes along the length of the double-stranded biopolymer target molecule using one or more probes and obtaining information about the location of the probe(s) using a detector. These methods offer particular advantage when implemented with nanopore (including micropore) detection systems.

Abstract: Techniques for assembly of genetic maps including de novo assembly of distance maps using multiple alignment consensus construction. Multiple map alignment can be performed on a defined bundle of fragment maps corresponding to biomolecule fragments to determine consensus events and corresponding locations. Fragment maps in the bundle can be removed when there is no overhang from the consensus events. When the subset of fragment maps in the bundle is less than a predetermined threshold, one or more additional fragment maps can be added based on fragment signatures, a consensus alignment score, and a pairwise alignment score. Techniques for multiple alignment can include generating a graph with edges and vertices representing each pairwise relation. An ordered set of sets of events best representing a multiple alignment reflecting all pairwise alignments can be generated by repeatedly randomly removing edges and combining vertices to identify a min cut of the graph.

Abstract: A method for determining a sequence of a biomolecule, the method including binding a plurality of uniform probes to a biomolecule fragment, creating a collection of binding signatures for the fragment with each binding signature representing a series of distances between binding sites within the fragment, and grouping the binding signatures into a plurality of signature clusters based at least in part on distances between the binding sites in each binding signature. For each binding signature in a first cluster, a potential successor binding signature is selected from signature clusters other than the first signature cluster, and one of the potential successor binding signatures is identified as a successor binding signature. The last two steps are repeated until the successor signature represents a terminal signature, resulting in a sequence of signatures representing at least a portion of the biomolecule.

Abstract: Methods for sequencing a biopolymer by forming local ternary complexes along the length of the double-stranded biopolymer target molecule using one or more probes and obtaining information about the location of the probe(s) using a detector. These methods offer particular advantage when implemented with nanopore (including micropore) detection systems.

Abstract: Methods for sequencing a biopolymer by forming local ternary complexes along the length of the double-stranded biopolymer target molecule using one or more probes and obtaining information about the location of the probe(s) using a detector. These methods offer particular advantage when implemented with nanopore (including micropore) detection systems.

Abstract: A method for determining a sequence of a biomolecule, the method including binding a plurality of uniform probes to a biomolecule fragment, creating a collection of binding signatures for the fragment with each binding signature representing a series of distances between binding sites within the fragment, and grouping the binding signatures into a plurality of signature clusters based at least in part on distances between the binding sites in each binding signature. For each binding signature in a first cluster, a potential successor binding signature is selected from signature clusters other than the first signature cluster, and one of the potential successor binding signatures is identified as a successor binding signature. The last two steps are repeated until the successor signature represents a terminal signature, resulting in a sequence of signatures representing at least a portion of the biomolecule.

Abstract: Methods for sequencing a biopolymer by forming local ternary complexes along the length of the double-stranded biopolymer target molecule using one or more probes and obtaining information about the location of the probe(s) using a detector. These methods offer particular advantage when implemented with nanopore (including micropore) detection systems.