This invention provides a device for sequencing and identification of biopolymers electronically.

Provided herein are methods, compositions, and kits for sequencing nucleic acid molecules of a sample in 3 dimensions (e.g., 3D sequencing).

Provided herein are methods, compositions, and kits for sequencing nucleic acid molecules of a sample in 3 dimensions (e.g., 3D sequencing).

Disclosed herein are highly accurate approaches for single molecule electronic nanopore-based SBS.

Disclosed herein are highly accurate approaches for single molecule electronic nanopore-based SBS.

Provided are compositions, methods and systems for determining the sequence of a template nucleic acid using a polymerase-based, sequencing-by-binding procedure. An examination step involves monitoring the interaction between a polymerase and template nucleic acid in the presence of one or more nucleotides. Identity of the next correct nucleotide in the sequence is determined without incorporation of any nucleotide into the structure of the primer by formation of a phosphodiester bond. An optional incorporation step can be used after the examination step to extend the primer by one or more nucleotides, thereby incrementing the template nucleotides that can be examined in a subsequent examination step. The sequencing-by-binding procedure does not require the use of labeled nucleotides or polymerases, but optionally can employ these reagents.

Provided are compositions, methods and systems for determining the sequence of a template nucleic acid using a polymerase-based, sequencing-by-binding procedure. An examination step involves monitoring the interaction between a polymerase and template nucleic acid in the presence of one or more nucleotides. Identity of the next correct nucleotide in the sequence is determined without incorporation of any nucleotide into the structure of the primer by formation of a phosphodiester bond. An optional incorporation step can be used after the examination step to extend the primer by one or more nucleotides, thereby incrementing the template nucleotides that can be examined in a subsequent examination step. The sequencing-by-binding procedure does not require the use of labeled nucleotides or polymerases, but optionally can employ these reagents.

Methods for incorporation of unique bowtie-barcodes into a nucleic acid origami nanostructure (FIG. 1). In particular, provided herein are methods that facilitate pairing and analysis of nucleic acids from individual cells using, for example, high-throughput next-generation sequencing.

Methods for incorporation of unique bowtie-barcodes into a nucleic acid origami nanostructure (FIG. 1). In particular, provided herein are methods that facilitate pairing and analysis of nucleic acids from individual cells using, for example, high-throughput next-generation sequencing.

The present application generally to the diagnosis and treatment of diseases resulting from the alteration of chromatin boundaries between topologically-associated domains. In particular, the present application relates to detection of mutations causing DNA hypermethylation phenotypes, CpG methylation within CTCF binding motifs, and aberrant gene expression caused by altered chromatin topology. Applicants show that IDH mutant gliomas exhibit hyper-methylation at CTCF binding sites, compromising binding of this methylation-sensitive insulator protein. Applicants also demonstrate that loss of CTCF at a domain boundary permits a constitutive enhancer to aberrantly interact with the receptor tyrosine kinase gene PDGFRA, a prominent glioma oncogene. Thus, Applicants have uncovered that IDH mutations may promote gliomagenesis by disrupting chromosomal topology and allowing aberrant regulatory interactions that induce oncogene expression.