title: Quantifying mammalian genomic DNA hydroxymethylcytosine content using solid-state nanopores.
abstract: 5-hydroxymethylcytosine (5 hmC), the oxidized form of 5-methylcytosine (5 mC), is a base modification with emerging importance in biology and disease. However, like most epigenetic elements, it is transparent to many conventional genetic techniques and is thus challenging to probe. Here, we report a rapid solid-state nanopore assay that is capable of resolving 5 hmC with high specificity and sensitivity and demonstrate its utility in assessing global modification abundance in genomic DNA.
authors.affiliation: Virginia Tech-Wake Forest University School of Biomedical Engineering and Sciences, Wake Forest University School of Medicine, Winston-Salem, NC 27101, USA.
authors.forename: Osama K
authors.initials: OK
authors.lastname: Zahid
authors.affiliation: Department of Chemistry, Department of Biochemistry and Molecule Biology, Institute for Biophysical Dynamics, The University of Chicago, 929 East 57th Street, Chicago, Illinois 60637, USA.
authors.forename: Boxuan Simen
authors.initials: BS
authors.lastname: Zhao
authors.affiliation: Department of Chemistry, Department of Biochemistry and Molecule Biology, Institute for Biophysical Dynamics, The University of Chicago, 929 East 57th Street, Chicago, Illinois 60637, USA.|Howard Hughes Medical Institute, The University of Chicago, 929 East 57th Street, Chicago, Illinois 60637, USA.
authors.forename: Chuan
authors.initials: C
authors.lastname: He
authors.affiliation: Virginia Tech-Wake Forest University School of Biomedical Engineering and Sciences, Wake Forest University School of Medicine, Winston-Salem, NC 27101, USA.|Comprehensive Cancer Center, Wake Forest University School of Medicine, Winston-Salem, NC 27101, USA.
authors.forename: Adam R
authors.initials: AR
authors.lastname: Hall
mesh_terms: D044503:5-Methylcytosine / Q000031:analogs & derivatives* / Q000032:analysis; D000818:Animals; D019921:Biotinylation; D004247:DNA / Q000235:genetics / Q000378:metabolism*; D044127:Epigenesis, Genetic; D023281:Genomics / Q000295:instrumentation / Q000379:methods*; D051379:Mice; D058608:Nanopores; D009841:Oligonucleotides / Q000138:chemical synthesis / Q000378:metabolism; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity; D053719:Tandem Mass Spectrometry; D014465:Ultrasonics / Q000379:methods
chemical_list: D009841:Oligonucleotides; C011865:5-hydroxymethylcytosine; D044503:5-Methylcytosine; D004247:DNA