Transposition of native chromatin for personal epigenomics
AssigneeThe Board of Trustees of the Leland Stanford Junior University
InventorsPaul Giresi, Jason D. Buenrostro, Howard Y. Chang, William J. Greenleaf
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Abstract
Provided herein is a method for analyzing polynucleotides such as genomic DNA. In certain embodiments, the method comprises: (a) treating chromatin isolated from a population of cells with an insertional enzyme complex to produce tagged fragments of genomic DNA; (b) sequencing a portion of the tagged fragments to produce a plurality of sequence reads; and (c) making an epigenetic map of a region of the genome of the cells by mapping information obtained from the sequence reads to the region. A kit for performing the method is also provided.
Claims30
A method for analyzing chromatin, comprising:
- (a) contacting chromatin in a permeabilized cell nucleus of a mammalian cell with an insertional enzyme complex such that polynucleotides of said permeabilized cell nucleus are cleaved and tagged at regions of open chromatin to produce a plurality of tagged nucleic acid fragments,
- wherein a tagged nucleic acid fragment comprises molecular tags comprising sequencing adaptors;
- (b) performing one or more nucleic acid reactions on the tagged nucleic acid fragments to produce a plurality of sequence reads;
- and
- (c) making an epigenetic map of a region of the permeabilized cell nucleus genome by mapping information obtained from the sequence reads to the region of the genome.
A method for analyzing chromatin, comprising:
- (a) contacting chromatin in a permeabilized cell nucleus of a mammalian cell with an insertional enzyme complex such that polynucleotides of said permeabilized cell nucleus are cleaved and tagged at regions of open chromatin to produce a plurality of tagged nucleic acid fragments, wherein said insertional enzyme complex does not comprise an antibody specific to a protein that is part of said chromatin, and wherein a tagged nucleic acid fragment comprises molecular tags comprising sequencing adaptors;
- (b) performing one or more nucleic acid reactions on the tagged nucleic acid fragments to produce a plurality of sequence reads;
- and
- (c) making an epigenetic map of a region of the permeabilized cell nucleus genome by mapping information obtained from the sequence reads to the region of the genome.
Dependencies are inferred from the claim text.