Disclosed herein include systems, methods, compositions, and kits for sample analysis. Nucleic acid fragments comprising a capture sequence (or a complement thereof) can be generated from double-stranded genomic deoxyribonucleic acid (gDNA), barcoded to generate single-stranded DNA (ssDNA) fragments, and sequenced. Information relating to the gDNA (e.g., genome, chromatin accessibility, methylome) can be determined based on the sequences of the ssDNA fragments in the sequencing data obtained.

Disclosed herein include systems, methods, compositions, and kits for sample analysis. Nucleic acid fragments comprising a capture sequence (or a complement thereof) can be generated from double-stranded genomic deoxyribonucleic acid (gDNA), barcoded to generate single-stranded DNA (ssDNA) fragments, and sequenced. Information relating to the gDNA (e.g., genome, chromatin accessibility, methylome) can be determined based on the sequences of the ssDNA fragments in the sequencing data obtained.

Disclosed herein include systems, methods, compositions, and kits for sample analysis. Nucleic acid fragments comprising a capture sequence (or a complement thereof) can be generated from double-stranded genomic deoxyribonucleic acid (gDNA), barcoded to generate single-stranded DNA (ssDNA) fragments, and sequenced. Information relating to the gDNA (e.g., genome, chromatin accessibility, methylome) can be determined based on the sequences of the ssDNA fragments in the sequencing data obtained.

Disclosed herein include systems, methods, compositions, and kits for sample analysis. Nucleic acid fragments comprising a capture sequence (or a complement thereof) can be generated from double-stranded genomic deoxyribonucleic acid (gDNA), barcoded to generate single-stranded DNA (ssDNA) fragments, and sequenced. Information relating to the gDNA (e.g., genome, chromatin accessibility, methylome) can be determined based on the sequences of the ssDNA fragments in the sequencing data obtained.

The present disclosure is directed to methods and processes that may be used to increase the signal of a target-specific reporter molecule (such as a probe) by covalently attaching plural copies of a fluorophore to a target-reporter duplex that are excited by iFRET (induced fluorescence resonance energy transfer) from donor fluorescence of a double-stranded DNA-binding dye bound to the double-stranded DNA structure created by hybridization of reporter and target during an amplification reaction. In one illustrative example, a double-stranded DNA-binding dye is provided in solution and during amplification and/or after completion of amplification, the dye binds to the probe-target duplex, and provides fluorescence resonance energy transfer to multiple acceptor fluorophores that are covalently attached to the duplex.

The present disclosure is directed to methods and processes that may be used to increase the signal of a target-specific reporter molecule (such as a probe) by covalently attaching plural copies of a fluorophore to a target-reporter duplex that are excited by iFRET (induced fluorescence resonance energy transfer) from donor fluorescence of a double-stranded DNA-binding dye bound to the double-stranded DNA structure created by hybridization of reporter and target during an amplification reaction. In one illustrative example, a double-stranded DNA-binding dye is provided in solution and during amplification and/or after completion of amplification, the dye binds to the probe-target duplex, and provides fluorescence resonance energy transfer to multiple acceptor fluorophores that are covalently attached to the duplex.

The present disclosure relates generally to systems and methods for screening sample preparation conditions and, more specifically, high throughput screening of tissue sample preparation conditions.

The present disclosure relates generally to systems and methods for screening sample preparation conditions and, more specifically, high throughput screening of tissue sample preparation conditions.

Systems and methods for identifying sequence information from measurements made on single nucleic acid molecules are disclosed. The systems and methods can include binding portions of nucleic acid molecules with marker molecules, such as fluorescent molecules and/or intercalating molecules. The marker molecules provide a detectable signal that includes information about the underlying genomic information of the location on the nucleic acid molecule where a given marker molecule is bound. A profile of the detectable signal along a position of the nucleic acid is acquired for multiple different nucleic acid molecules. The PRIMR algorithm processes the data to provide a consensus profile from which a consensus underlying genomic information can be determined.

Systems and methods for identifying sequence information from measurements made on single nucleic acid molecules are disclosed. The systems and methods can include binding portions of nucleic acid molecules with marker molecules, such as fluorescent molecules and/or intercalating molecules. The marker molecules provide a detectable signal that includes information about the underlying genomic information of the location on the nucleic acid molecule where a given marker molecule is bound. A profile of the detectable signal along a position of the nucleic acid is acquired for multiple different nucleic acid molecules. The PRIMR algorithm processes the data to provide a consensus profile from which a consensus underlying genomic information can be determined.