Douglas K Roberts

US Patent:

8221978, Jul 17, 2012

Filed:

Jan 26, 2007

Appl. No.:

12/279570

Inventors:

Jing Gao - San Jose CA, US
B. Shane Giles - Fremont CA, US
Peter G. Webb - Menlo Park CA, US
Douglas N. Roberts - Campbell CA, US

Assignee:

Agilent Technologies, Inc. - Santa Clara CA

International Classification:

C12Q 1/68
C12M 1/34
G01N 33/48
C12N 15/11
C07H 21/04

US Classification:

435 611, 4352871, 4352872, 536 243, 702 19, 702 20

Abstract:

A method of selecting a set of normalization probes for use on a comparative genome hybridization array is provided. In certain embodiments, the method includes: a) selecting a first region of a genome to be evaluated by comparative genome hybridization to produce data; b) selecting a second region of the genome for normalization of the data, and c) selecting from a set of candidate probes a sub-set of normalization probes that detect the second region.

US Patent:

20070141584, Jun 21, 2007

Filed:

Dec 20, 2005

Appl. No.:

11/313522

Inventors:

Douglas N. Roberts - Campbell CA, US
Douglas A. Amorese - Los Altos CA, US
Stephanie Fulmer-Smentek - Cupertino CA, US

International Classification:

C12Q 1/68
C12P 19/34

US Classification:

435 6, 435 912

Abstract:

A method for determining chromatin accessibility of nucleic acids in a cell by expressing an effective amount of a nuclease in a cell to digest chromatin at chromatin accessible sites to form chromatin fragments; isolating chromatin fragments from the cell; and hybridizing the chromatin fragments on a microarray to determine the location and/or sequence of the chromatin fragments.

US Patent:

20070231800, Oct 4, 2007

Filed:

Mar 28, 2006

Appl. No.:

11/390828

Inventors:

Douglas N. Roberts - Campbell CA, US
Anniek De Witte - Palo Alto CA, US

Assignee:

Agilent Technologies, Inc. - Loveland CO

International Classification:

C12Q 1/68
C12P 19/34

US Classification:

435 6, 435 912

Abstract:

The present invention generally relates to the determination of the state of one or more locations within a nucleic acid and, in particular, to the determination of the methylation state of one or more methylation sites within a nucleic acid such as DNA. In one aspect of the invention, a nucleic acid, such as DNA, that is suspected of being methylated is exposed to a nucleic acid probe able to hybridize the nucleic acid at or near the methylation site. After hybridization, the nucleic acid-probe hybrid is exposed to a methylation-sensitive restriction endonuclease able to bind at or near the methylation site. The restriction endonuclease is not able to cleave the nucleic acid-probe hybrid if the DNA is methylated at the methylation site, but is able to cleave the nucleic acid-probe hybrid if the nucleic acid is not methylated at the methylation site. Determination of the cleavage state of the probe can thus be used to determine the state of the methylation site.

US Patent:

20070233398, Oct 4, 2007

Filed:

Mar 28, 2006

Appl. No.:

11/390797

Inventors:

Svetlana Shchegrova - Campbell CA, US
Peter Webb - Menlo Park CA, US
Douglas Roberts - Campbell CA, US
B. Giles - Fremont CA, US

International Classification:

G06F 19/00

US Classification:

702020000

Abstract:

Methods are disclosed for predicting the performance of oligonucleotide probes by identifying the sequence of a candidate probe, generating experimental data for the probe and using the data to train a statistical regression model. Nucleic acid arrays containing probes with performance predicted by the described using methods are provided. Also included are algorithms for performing the subject methods recorded on computer-readable media, and computational systems for analysis.

US Patent:

20070292842, Dec 20, 2007

Filed:

Jun 14, 2006

Appl. No.:

11/453205

Inventors:

Stephanie B. Fulmer-Smentek - Cupertino CA, US
Douglas N. Roberts - Campbell CA, US
Douglas A. Amorese - Los Altos CA, US

International Classification:

C12Q 1/70
C12Q 1/68
C12N 15/86

US Classification:

435 5, 435 6, 435456

Abstract:

Methods for detecting the integration of viral nucleic acids into a host cell, and methods for determining the locus of integration using microarrays are described. The methods can also be used in conjunction with viral vectors used in gene therapy.

US Patent:

20080102452, May 1, 2008

Filed:

Oct 31, 2006

Appl. No.:

11/590711

Inventors:

Douglas N. Roberts - Campbell CA, US
Stephen B. Milligan - Los Altos CA, US

International Classification:

C12Q 1/68
C07H 21/04

US Classification:

435 6, 536 243

Abstract:

In some embodiments, control nucleic acid constructs useful as spiking reagents are provided which comprise a nucleic acid vector having an insert comprising a control nucleic acid molecule. In some embodiments, the insert contains at least one methyltransferase recognition site, such as a CpG dinucleotide. In some embodiments, the insert has a sequence complementary to a negative control probe of a microarray. Methods and kits for using the control nucleic acid constructs as spiking reagents in methylation analysis are disclosed.

US Patent:

20110115179, May 19, 2011

Filed:

Nov 17, 2009

Appl. No.:

12/620565

Inventors:

Douglas E. Roberts - Pacifica CA, US

International Classification:

B62B 1/00

US Classification:

280 47331

Abstract:

An apparatus includes a first carrier device having a first upright. A first axle and a first wheel are joined proximate a first distal end of the first upright. A first support plate is joined to the first upright above the first wheel. A second carrier device has a second upright. A second axle and a second wheel are joined proximate a first distal end of the second upright. A second support plate is joined to the second upright above the second wheel. An adjustment bar has a first end, a second end and a plurality of adjustment positions extending inward from the second end. The first end is joined proximate a second distal end of the first upright. A one of the plurality of adjustment positions is joined to a second distal end of the second upright, whereby a distance between the first and the second upright is selected.

US Patent:

D4156412, Oct 26, 1999

Filed:

Jun 19, 1998

Appl. No.:

D/089654

Inventors:

Douglas Endress Roberts - Carmichael CA

International Classification:

0602

US Classification:

D 6512