Carl Robert Brown

US Patent:

6862363, Mar 1, 2005

Filed:

Jan 25, 2001

Appl. No.:

09/770833

Inventors:

Carl S. Brown - Seattle WA, US
Paul C. Goodwin - Shoreline WA, US

Assignee:

Applied Precision, LLC - Issaquah WA

International Classification:

G06K009/00

US Classification:

382129, 382274, 382228, 435 6

Abstract:

Expression profiling using DNA microarrays is an important new method for analyzing cellular physiology. In “spotted” microarrays, fluorescently labeled cDNA from experimental and control cells is hybridized to arrayed target DNA and the arrays imaged at two or more wavelengths. Statistical analysis is performed on microarray images and show that non-additive background, high intensity fluctuations across spots, and fabrication artifacts interfere with the accurate determination of intensity information. The probability density distributions generated by pixel-by-pixel analysis of images can be used to measure the precision with which spot intensities are determined. Simple weighting schemes based on these probability distributions are effective in improving significantly the quality of microarray data as it accumulates in a multi-experiment database. Error estimates from image-based metrics should be one component in an explicitly probabilistic scheme for the analysis of DNA microarray data.

US Patent:

7062091, Jun 13, 2006

Filed:

Jan 14, 2002

Appl. No.:

10/047458

Inventors:

Carl S. Brown - Seattle WA, US
Ray H. Kraft - Seattle WA, US
John Timothy Strom - North Bend WA, US
Mark D. Cavelero - Everett WA, US

Assignee:

Applied Precision, LLC - Issaquah WA

International Classification:

G06K 9/32

US Classification:

382195, 382291, 382293, 358486, 358488

Abstract:

A scanning system is calibrated to correct for possible panel misalignments errors. A reference slide or data point is used to obtain a series of measurements with the scanning system. These measurements are compared with the expected results to determine systematic alignment errors in the scanning system. A model is created to correct the alignment errors during the scanning process, thus providing a plurality of more accurate scans. The plurality of scans may then be assembled to create a complete image of the scan area.

US Patent:

7228003, Jun 5, 2007

Filed:

Jun 18, 2004

Appl. No.:

10/872293

Inventors:

Carl S. Brown - Seattle WA, US

Assignee:

Applied Precision, LLC - Issaquah WA

International Classification:

G06H 9/00
G06H 9/36

US Classification:

382266, 382262, 382277, 382275

Abstract:

A plurality of panels are assembled into a single image. Each of the panels may have different intensities throughout the panel, as well as non-uniformities between panels. The panels are modified using flat-field calibration, panel flattening, and panel connecting techniques. These techniques correct for non-uniformities and provide a cleaner, single image.

US Patent:

7283253, Oct 16, 2007

Filed:

Mar 13, 2003

Appl. No.:

10/389269

Inventors:

Steven A. Reese - Shoreline WA, US
Carl S. Brown - Seattle WA, US
Paul C. Goodwin - Shor line WA, US

Assignee:

Applied Precision, LLC - Issaquah WA

International Classification:

G01B 11/24

US Classification:

356601

Abstract:

An image acquisition system and method employing multi-axis integration (MAI) may incorporate both optical axis integration (OAI) and time-delay integration (TDI) techniques. Disclosed MAI systems and methods may integrate image data in the z direction as the data are acquired, projecting the image data prior to deconvolution. Lateral translation of the image plane during the scan in the z direction may allow large areas to be imaged in a single scan sequence.

US Patent:

7330588, Feb 12, 2008

Filed:

Sep 23, 2004

Appl. No.:

10/949270

Inventors:

Carl S. Brown - Seattle WA, US
Paul C. Goodwin - Shoreline WA, US

Assignee:

Applied Precision, LLC - Issaquah WA

International Classification:

G06K 9/34

US Classification:

382173, 382228

Abstract:

Expression profiling using DNA microarrays is an important new method for analyzing cellular physiology. In “spotted” microarrays, fluorescently labeled cDNA from experimental and control cells is hybridized to arrayed target DNA and the arrays imaged at two or more wavelengths. Statistical analysis is performed on microarray images and show that non-additive background, high intensity fluctuations across spots, and fabrication artifacts interfere with the accurate determination of intensity information. The probability density distributions generated by pixel-by-pixel analysis of images can be used to measure the precision with which spot intensities are determined. Simple weighting schemes based on these probability distributions are effective in improving significantly the quality of microarray data as it accumulates in a multi-experiment database. Error estimates from image-based metrics should be one component in an explicitly probabilistic scheme for the analysis of DNA microarray data.

US Patent:

7408176, Aug 5, 2008

Filed:

Jun 18, 2004

Appl. No.:

10/872329

Inventors:

Paul C. Goodwin - Shoreline WA, US
Carl S. Brown - Seattle WA, US
Steven A. Reese - Shoreline WA, US

Assignee:

Applied Precision, LLC - Issaquah WA

International Classification:

G01N 21/64

US Classification:

2504591, 2504581

Abstract:

A system and method employing photokinetic techniques in cell biology imaging applications are disclosed. Systems and methods of acquiring image data of an object may comprise: selectively inducing photoactivation of material at a site on the object; performing an optical axis integration scan; simultaneously executing a time delay integration scan sequence; and processing acquired image data in accordance with one or more desired analyses. Various methodologies and applications may include, inter alia, selective photobleaching of a site on the object, diffusion rate, velocity, and wave-front propagation analyses, multi-dimensional analyses of dispersion characteristics, biomolecular binding in cellular organelles, and photoactivation assisted systematic image segmentation for the study of cellular components.

US Patent:

7608840, Oct 27, 2009

Filed:

Aug 4, 2008

Appl. No.:

12/185775

Inventors:

Paul C. Goodwin - Shoreline WA, US
Carl S. Brown - Seattle WA, US
Steven A. Reese - Shoreline WA, US

Assignee:

Applied Precision, LLC - Issaquah WA

International Classification:

G01N 21/64

US Classification:

2504591, 2504581

Abstract:

A system and method employing photokinetic techniques in cell biology imaging applications are disclosed. Systems and methods of acquiring image data of an object may comprise: selectively inducing photoactivation of material at a site on the object; performing an optical axis integration scan; simultaneously executing a time delay integration scan sequence; and processing acquired image data in accordance with one or more desired analyses. Various methodologies and applications may include, inter alia, selective photobleaching of a site on the object, diffusion rate, velocity, and wave-front propagation analyses, multi-dimensional analyses of dispersion characteristics, biomolecular binding in cellular organelles, and photoactivation assisted systematic image segmentation for the study of cellular components.

US Patent:

7683345, Mar 23, 2010

Filed:

Aug 4, 2008

Appl. No.:

12/185785

Inventors:

Paul C. Goodwin - Shoreline WA, US
Carl S. Brown - Seattle WA, US
Steven A. Reese - Shoreline WA, US

Assignee:

Applied Precision, Inc. - Issaquah WA

International Classification:

G01J 1/58

US Classification:

2504591

Abstract:

A system and method employing photokinetic techniques in cell biology imaging applications are disclosed. Systems and methods of acquiring image data of an object may comprise: selectively inducing photoactivation of material at a site on the object; performing an optical axis integration scan; simultaneously executing a time delay integration scan sequence; and processing acquired image data in accordance with one or more desired analyses. Various methodologies and applications may include, inter alia, selective photobleaching of a site on the object, diffusion rate, velocity, and wave-front propagation analyses, multi-dimensional analyses of dispersion characteristics, biomolecular binding in cellular organelles, and photoactivation assisted systematic image segmentation for the study of cellular components.