An improved method for the rapid and efficient production of guide strand libraries is disclosed. Also included are kits comprising reagents suitable for practicing the method.

An improved method for the rapid and efficient production of guide strand libraries is disclosed. Also included are kits comprising reagents suitable for practicing the method.

The present disclosure provides a method for making an amplified methylome by extending fragments and treating the extended fragments with a methyl transferase and source of methyl groups to transform hemi-methylated double stranded DNA to fully methylated double stranded DNA.

The present disclosure provides a method for making an amplified methylome by extending fragments and treating the extended fragments with a methyl transferase and source of methyl groups to transform hemi-methylated double stranded DNA to fully methylated double stranded DNA.

Methods, compositions and kits are provided to amplify the amount of genomic methylated DNA can by subsequently analyzed and/or sequenced. It has particular use with small amounts of DNA, including, but not limited to cell free DNA samples. In some embodiments, the ratio of polymerase and methyltransferase is controlled in order to provide maximum yields. In some embodiments, a dual primase/polymerase is used.

Methods, compositions and kits are provided to amplify the amount of genomic methylated DNA can by subsequently analyzed and/or sequenced. It has particular use with small amounts of DNA, including, but not limited to cell free DNA samples. In some embodiments, the ratio of polymerase and methyltransferase is controlled in order to provide maximum yields. In some embodiments, a dual primase/polymerase is used.

The subject invention pertains to a method of determining methylation state and chromatin structure of target loci. The method comprises treating the genetic material obtained from the cells with DNA methyltransferase, capturing target genetic loci using a set of oligonucleotides, ligating the target loci with oligonucleotide patches that flank the target loci, treating the target loci flanked by oligonucleotide patches with bisulfite, optionally amplifying the target loci by polymerase chain reaction, sequencing the PCR products, and analyzing the sequences to determine methylation state and chromatin structure of the target loci. The current invention also provides a method to identify genes associated with a disease. The invention also provides a method to detect cells suffering from a disease in a group of cells. The current invention also provides kits suitable for carrying out the method of determining methylation state and chromatin structure of the target loci.

The subject invention pertains to a method of determining methylation state and chromatin structure of target loci. The method comprises treating the genetic material obtained from the cells with DNA methyltransferase, capturing target genetic loci using a set of oligonucleotides, ligating the target loci with oligonucleotide patches that flank the target loci, treating the target loci flanked by oligonucleotide patches with bisulfite, optionally amplifying the target loci by polymerase chain reaction, sequencing the PCR products, and analyzing the sequences to determine methylation state and chromatin structure of the target loci. The current invention also provides a method to identify genes associated with a disease. The invention also provides a method to detect cells suffering from a disease in a group of cells. The current invention also provides kits suitable for carrying out the method of determining methylation state and chromatin structure of the target loci.

The present disclosure provides materials and methods for mapping specific protein-DNA interactions genome-wide, including highly repetitive areas of the genome, by performing targeted modifications of base-pairs at or near the genomic site where a protein of interest is interacting, followed by direct detection of those modified base-pairs using long-read DNA sequencing.

The present disclosure provides materials and methods for mapping specific protein-DNA interactions genome-wide, including highly repetitive areas of the genome, by performing targeted modifications of base-pairs at or near the genomic site where a protein of interest is interacting, followed by direct detection of those modified base-pairs using long-read DNA sequencing.