Provided herein are methods and compositions for creating a sequencing library comprising a target nucleic acid. Methods herein can comprise: contacting a nucleic acid sample to a first population of primers, a polymerase, dNTPs, and labeled ddNTPs; performing an extension reaction thereby creating an labeled extension product; contacting the extension product to a second population of primers to create a double stranded extension product comprising the target nucleic acid; contacting the double stranded extension product to a target specific enzyme under conditions allowing cleavage of at least a subset of the double stranded extension product thereby creating a cleaved target nucleic acid; and isolating the cleaved target nucleic acid.

Provided herein are methods and compositions for creating a sequencing library comprising a target nucleic acid. Methods herein can comprise: contacting a nucleic acid sample to a first population of primers, a polymerase, dNTPs, and labeled ddNTPs; performing an extension reaction thereby creating an labeled extension product; contacting the extension product to a second population of primers to create a double stranded extension product comprising the target nucleic acid; contacting the double stranded extension product to a target specific enzyme under conditions allowing cleavage of at least a subset of the double stranded extension product thereby creating a cleaved target nucleic acid; and isolating the cleaved target nucleic acid.

Provided herein are systems and methods for detection of an epigenetic modification in a nucleic acid sequence. The systems and methods as described herein may provide a substantially unbiased approach in detecting an epigenetic modification. The systems and method as described herein may provide a substantially unbiased approach in detecting an epigenetic modification in comparison to systems and methods that amplify sequences having a label or a moiety associated with an epigenetic modification.

Provided herein are systems and methods for detection of an epigenetic modification in a nucleic acid sequence. The systems and methods as described herein may provide a substantially unbiased approach in detecting an epigenetic modification. The systems and method as described herein may provide a substantially unbiased approach in detecting an epigenetic modification in comparison to systems and methods that amplify sequences having a label or a moiety associated with an epigenetic modification.

The present disclosure is generally directed to methods for controlling the polymerization of metastable oligonucleotide hairpins using the hybridization chain reaction (HCR) by introducing one or more base pair mismatches in the hairpins. Control was achieved through the introduction of a base-pair mismatch in the duplex of the hairpins. The mismatch modification allows one to energetically differentiate initiation versus propagation events, leading to DNA oligomers up to 10-mers with degree of polymerization (DP) dispersity between 1.3 and 1.6.

The present disclosure is generally directed to methods for controlling the polymerization of metastable oligonucleotide hairpins using the hybridization chain reaction (HCR) by introducing one or more base pair mismatches in the hairpins. Control was achieved through the introduction of a base-pair mismatch in the duplex of the hairpins. The mismatch modification allows one to energetically differentiate initiation versus propagation events, leading to DNA oligomers up to 10-mers with degree of polymerization (DP) dispersity between 1.3 and 1.6.

There are provided methods and systems for detecting and/or quantifying an analyte. In particular, there are provided methods and systems for simultaneous detection and/or quantitation of two or more analytes in a sample. Colocalization-by-linkage assays on microparticles (CLAMP) can be engineered and used to effectively multiplex the detection of analytes within a sample. Features and methods of CLAMP systems can provide robust and scalable analysis of analytes in a sample.

There are provided methods and systems for detecting and/or quantifying an analyte. In particular, there are provided methods and systems for simultaneous detection and/or quantitation of two or more analytes in a sample. Colocalization-by-linkage assays on microparticles (CLAMP) can be engineered and used to effectively multiplex the detection of analytes within a sample. Features and methods of CLAMP systems can provide robust and scalable analysis of analytes in a sample.

The present disclosure describes a method for detecting the presence of Mycobacterium tuberculosis in a bodily fluid sample. The method utilizes CRISPR effector proteins along with a guide RNA and a reporter molecule, such that when the guide RNA hybridizes with a target nucleotide fragment, the CRISPR effector protein cleaves the reporter molecule, resulting in a detectable signal.

The present disclosure describes a method for detecting the presence of Mycobacterium tuberculosis in a bodily fluid sample. The method utilizes CRISPR effector proteins along with a guide RNA and a reporter molecule, such that when the guide RNA hybridizes with a target nucleotide fragment, the CRISPR effector protein cleaves the reporter molecule, resulting in a detectable signal.