Cynthia L Adams

US Patent:

6631331, Oct 7, 2003

Filed:

Nov 21, 2000

Appl. No.:

09/718836

Inventors:

James H. Sabry - San Francisco CA
Cynthia L. Adams - Palo Alto CA
Eugeni A. Vaisberg - Foster City CA
Anne M. Crompton - San Francisco CA

Assignee:

Cytokinetics, Inc. - South San Francisco CA

International Classification:

G01N 3348

US Classification:

702 19, 707 3, 435 6, 318640, 250213

Abstract:

A system for acquiring knowledge from cellular information. The system has a database comprising a database management module (âDBMSâ). The system also has a variety of modules, including a population module coupled to the DBMS for categorizing and storing a plurality of features (e. g. , cell size, distance between cells, cell population, cell type) from an image acquisition device into the database. The system has a translation module coupled to the DBMS for defining a descriptor from a set of selected features from the plurality of features. In a specific embodiment, the descriptor is for a known or unknown compound, e. g. , drug. A prediction module is coupled to the DBMS for selecting one of a plurality of a descriptors from known and unknown compounds from the database based upon a selected descriptor from a selected compound. The selected compound may be one that is useful for treatment of human beings or the like.

US Patent:

6651008, Nov 18, 2003

Filed:

Nov 21, 2000

Appl. No.:

09/721154

Inventors:

Eugeni A. Vaisberg - Foster City CA
Cynthia L. Adams - Palo Alto CA
James H. Sabry - San Francisco CA
Anne M. Crompton - San Francisco CA

Assignee:

Cytokinetics, Inc. - South San Francisco CA

International Classification:

G06F 1900

US Classification:

702 21, 435 4

Abstract:

According to the present invention, computer based techniques for using information technology in therapeutics or drug discovery. In an exemplary embodiment, computer based techniques for determining information about the properties of substances based upon information about structure of living or non-living cells exposed to substances are provided. Computer software according to the present invention enables researchers and/or scientists to identify promising candidates in the search for new and better medicines or treatments using, for example, a cellular informatics database.

US Patent:

6738716, May 18, 2004

Filed:

Nov 21, 2000

Appl. No.:

09/718766

Inventors:

James H. Sabry - San Francisco CA
Cynthia L. Adams - Palo Alto CA
Eugeni A. Vaisberg - Foster City CA
Anne M. Crompton - San Francisco CA

Assignee:

Cytokinetics, Inc. - South San Francisco CA

International Classification:

G01N 3348

US Classification:

702 19, 707 3, 707 4, 707 6, 435 6

Abstract:

A system for acquiring knowledge from cellular information. The system has a database comprising a database management module (âDBMSâ). The system also has a variety of modules, including a population module coupled to the DBMS for categorizing and storing a plurality of features (e. g. , cell size, distance between cells, cell population, cell type) from an image acquisition device into the database. The system has a translation module coupled to the DBMS for defining a descriptor from a set of selected features from the plurality of features. In a specific embodiment, the descriptor is for a known or unknown compound, e. g. , drug. A prediction module is coupled to the DBMS for selecting one of a plurality of a descriptors from known and unknown compounds from the database based upon a selected descriptor from a selected compound. The selected compound may be one that is useful for treatment of human beings or the like.

US Patent:

6743576, Jun 1, 2004

Filed:

May 14, 1999

Appl. No.:

09/311890

Inventors:

James H. Sabry - San Francisco CA
Cynthia L. Adams - Palo Alto CA
Eugeni A. Vaisberg - Foster City CA
Anne M. Crompton - San Francisco CA

Assignee:

Cytokinetics, Inc. - South San Francisco CA

International Classification:

C12Q 100

US Classification:

435 4, 422 50, 4352871

Abstract:

A system for acquiring knowledge from cellular information. The system has a database comprising a database management module (âDBMSâ). The system also has a variety of modules, including a population module coupled to the DBMS for categorizing and storing a plurality of features (e. g. , cell size, distance between cells, cell population, cell type) from an image acquisition device into the database. The system has a translation module coupled to the DBMS for defining a descriptor from a set of selected features from the plurality of features. In a specific embodiment, the descriptor is for a known or unknown compound, e. g. , drug. A prediction module is coupled to the DBMS for selecting one of a plurality of a descriptors from known and unknown compounds from the database based upon a selected descriptor from a selected compound. The selected compound may be one that is useful for treatment of human beings or the like.

US Patent:

7016787, Mar 21, 2006

Filed:

Feb 20, 2001

Appl. No.:

09/789595

Inventors:

Eugeni A. Vaisberg - Foster City CA, US
Donald R. Oestreicher - Cupertino CA, US
Cynthia L. Adams - Berkeley CA, US

Assignee:

Cytokinetics, Inc. - So. San Francisco CA

International Classification:

G01N 33/48
G06K 9/00

US Classification:

702 19, 382128, 382133

Abstract:

A method for generating stimulus response curves (e. g. , dose response curves) shows how the phenotype of one or more cells change in response to varying levels of the stimulus. Each “point” on the curve represents quantitative phenotype for cell(s) at a particular level of stimulus (e. g. , dose of a therapeutic). The quantitative phenotypes are multivariate phenotypic representations of the cell(s). They include various features of the cell(s) obtained by image analysis. Such features often include basic parameters obtained from images (e. g. , cell shape, nucleus area, Golgi texture) and/or biological characterizations derived from the basic parameters (e. g. , cell cycle state, mitotic index, etc. ). The stimulus response curves may be compared to allow classification of stimuli and identify subtle differences in related stimuli. To facilitate the comparison, it may be desirable to present the response curves in a principal component space.

US Patent:

7657076, Feb 2, 2010

Filed:

Jul 20, 2005

Appl. No.:

11/186143

Inventors:

Eugeni A. Vaisberg - Foster City CA, US
Donald R. Oestreicher - Cupertino CA, US
Cynthia L. Adams - Berkeley CA, US

Assignee:

Cytokinetics, Inc. - South San Francisco CA

International Classification:

G06K 9/00
G06K 9/20
G06K 9/36
G06F 19/00

US Classification:

382133, 382282, 382286, 702 19

Abstract:

A method for generating stimulus response curves (e. g. , dose response curves) shows how the phenotype of one or more cells change in response to varying levels of the stimulus. Each “point” on the curve represents quantitative phenotype for cell(s) at a particular level of stimulus (e. g. , dose of a therapeutic). The quantitative phenotypes are multivariate phenotypic representations of the cell(s). They include various features of the cell(s) obtained by image analysis. Such features often include basic parameters obtained from images (e. g. , cell shape, nucleus area, Golgi texture) and/or biological characterizations derived from the basic parameters (e. g. , cell cycle state, mitotic index, etc. ). The stimulus response curves may be compared to allow classification of stimuli and identify subtle differences in related stimuli. To facilitate the comparison, it may be desirable to present the response curves in a principal component space.

US Patent:

20020049544, Apr 25, 2002

Filed:

Jun 22, 2001

Appl. No.:

09/888063

Inventors:

Corey Nislow - San Francisco CA, US
Nolan Sigal - Los Altos CA, US
David Drubin - Berkeley CA, US
Cynthia Adams - Berkeley CA, US

Assignee:

Cytokinetics, Inc.

International Classification:

G01N033/48

US Classification:

702/019000

Abstract:

A method described herein phenotypes a set of mutant strains in a quantitative manner. Specifically, the method characterizes a cellular and subcellular architecture of mutant alleles grown in a variety of conditions using various morphological and molecular markers, combined with automated image acquisition and analysis. Phenotypic features may include the cytoskeleton, organelles, cell morphology, DNA replication state, the relationship of these features to each other, etc. From these features a quantitative “fingerprint” can be generated for each phenotype. This quantitative phenotypic information is made available in a database that links genotype to phenotype. Genes characterized in this manner may be clustered into functional categories, pathways, higher order protein assemblies, and the like.

US Patent:

20030228565, Dec 11, 2003

Filed:

Feb 20, 2001

Appl. No.:

09/790214

Inventors:

Donald Oestreicher - Cupertino CA, US
James Sabry - San Francisco CA, US
Cynthia Adams - Berkeley CA, US
Eugeni Vaisberg - Foster City CA, US
Anne Crompton - San Francisco CA, US

Assignee:

Cytokinetics, Inc.

International Classification:

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

US Classification:

435/004000, 435/006000, 702/019000, 702/020000

Abstract:

Techniques for using information technology in therapeutics or drug discovery. In an exemplary embodiment, techniques for determining information about the properties of substances based upon information about structure of living or non-living cells exposed to substances are provided. A method according to the present invention enables researchers and/or scientists to identify promising candidates in the search for new and better medicines or treatments using, for example, a multiple biological descriptors derived from a single cell component or marker. The method employs image analysis to extract a plurality of features (e.g., cell size, distance between cells, cell population, cell type) from an image acquisition device into the database.