Eva Lynn Robinson

US Patent:

20210054438, Feb 25, 2021

Filed:

Feb 28, 2019

Appl. No.:

16/977381

Inventors:

- Oakland CA, US
Hinrich Boeger - Santa Cruz CA, US
Eva Robinson - Santa Cruz CA, US
Robert Shelansky - Santa Cruz CA, US
Brandon Saint-John - Santa Cruz CA, US

International Classification:

C12Q 1/6806
C12Q 1/6869

Abstract:

Provided are methods of determining bound and unbound regions in nucleic acid molecules. In certain aspects, the methods include forming adducts in a double-stranded nucleic acid molecule that mark the locations of unbound regions in the double-stranded nucleic acid, and detecting the locations of the adducts in the double-stranded nucleic acid using a nanopore. Bound regions of the double-stranded nucleic acid molecule are determined based on the absence of adducts. In certain aspects, the double-stranded nucleic acid molecule is genomic DNA and the bound regions are nucleosome positions. As such, encompassed by the methods are methods of determining nucleosome positions in genomic DNA. Systems and kits that find use, e.g., in practicing the methods of the present disclosure are also provided.

US Patent:

20180171385, Jun 21, 2018

Filed:

Jun 2, 2016

Appl. No.:

15/579104

Inventors:

- Oakland CA, US
Aaron COZEN - Santa Cruz CA, US
Eva H. ROBINSON - Aptos CA, US
Andrew D. HOLMES - Santa Cruz CA, US
Eric PHIZICKY - Pittsford NY, US
Erin QUARTLEY - Rochester NY, US

Assignee:

The Regents of the University of California - Oakland CA

International Classification:

C12Q 1/6806
C12Q 1/6869
C12Q 1/686

Abstract:

In various embodiments, the invention teaches methods for detecting ribonucleic acid (RNA) molecules that contain certain chemical modifications using sequencing technologies. These modified RNAs are otherwise not readily detected using the commonly used cloning protocols required for sequencing. The method further includes bioinformatics analyses to identify specific RNA species that are modified at high resolution.