Mark E Berres, 58Arena, WI

2007014, Jun 28, 2007

Dec 22, 2006

11/615695

Mark BERRES - Madison WI, US
David Frisch - Fitchburg WI, US
Fredrick Blattner - Madison WI, US

C12Q 1/68
C12M 3/00

435006000, 435287200, 977924000

The present invention provides methods and apparatus for the optical fingerprinting of nucleic acid molecules. In certain embodiments, the invention provides methods for labeling nucleic acid molecules using-site-specific nucleic acid binding partners that bind to nucleic acids without cleaving the molecule. The nucleic acid binding partners can be labeled directly with a fluorophore, such as a quantum dot (QD), or indirectly. Examples of suitable binding partners include cut-deficient restriction endonucleases (cdREs), transcription factors, the binding domains of nucleic acid polymerases, antibodies and the like. The methods disclosed make the assembly of fingerprint contigs easier and allows for digitizing the results so as to provide for easier computer manipulation and assembly. The invention also includes a microarray, the microarray designed to provide for easy deposition and high-throughput fingerprinting. The invention also provides for methods of using the microarrays. The invention also provides kits for the use of the invention.

2013026, Oct 10, 2013

Apr 5, 2012

13/440975

Mark Berres - Arena WI, US

H04R 29/00

381 56

A system and method for identifying a bird vocalization is presented. An input audio signal representing the bird vocalization is captured. A fingerprint of the input audio signal is then generated. A score of a similarity of the fingerprint to at least one of a plurality of predetermined fingerprints is determined by determining a desirable alignment between the fingerprint and the at least one of a plurality of predetermined fingerprints. A report can be generated based on the score of the similarity and an identity of the at least one of the plurality of the predetermined fingerprints, the report identifying a bird species associated with the bird vocalization

2003014, Jul 31, 2003

Mar 29, 2002

10/112882

Mark Berres - Madison WI, US
John Kirsch - Madison WI, US
William Engels - Madison WI, US

C12Q001/68
G06F019/00
G01N033/48
G01N033/50

435/006000, 702/020000

The majority of PCR-based fingerprinting technologies generate dominant genetic markers; homozygote present and heterozygote genotypes cannot be distinguished using conventional detection methods. In contrast, codominant genetic markers provide an unambiguous distinction among each genotype. A genotyping method is described that includes procedures implemented in software. This method quantifies allele copy number and enables recovery of codominant genotypes from markers expressing ostensibly dominant phenotypes. These procedures are designed and implemented to (1) greatly reduce variability attributable to sample assay and detector noise, (2) accurately estimate allele size and copy number, (3) provide normalization criteria for intra- and inter-marker comparisons, and (4) scale the resulting data to determine the genotype of individual markers.