Rui Juan Mei

US Patent:

7297778, Nov 20, 2007

Filed:

Oct 4, 2002

Appl. No.:

10/264945

Inventors:

Hajime Matsuzaki - Palo Alto CA, US
Xing Su - Cupertino CA, US
Sean Walsh - Danville CA, US
Giulia Kennedy - San Francisco CA, US
Rui Mei - Santa Clara CA, US

Assignee:

Affymetrix, Inc. - Santa Clara CA

International Classification:

C07H 21/00
C12Q 1/68

US Classification:

536 221, 536 2432, 435 6

Abstract:

The presently claimed invention provides for novel methods and kits for analyzing a collection of target sequences in a nucleic acid sample. A sample is amplified under conditions that enrich for a subset of fragments that includes a collection of target sequences. The invention further provides for analysis of the above sample by hybridization to an array, which may be specifically designed to interrogate the collection of target sequences for particular characteristics, such as, for example, the presence or absence of one or more polymorphisms.

US Patent:

7300788, Nov 27, 2007

Filed:

Oct 7, 2003

Appl. No.:

10/681773

Inventors:

Hajime Matsuzaki - Palo Alto CA, US
Rui Mei - Santa Clara CA, US
Mei-Mei Shen - Cupertino CA, US
Giulia C. Kennedy - San Francisco CA, US

Assignee:

Affymetrix, Inc. - Santa Clara CA

International Classification:

C12M 1/34
C12M 3/00
C07H 21/04
C12Q 1/68

US Classification:

4352872, 536 231, 536 243, 435 911

Abstract:

The invention provides nucleic acid sequences that are complementary, in one embodiment, to a wide variety of human polymorphisms. The invention provides the sequences in such a way as to make them available for a variety of analyses including genotyping a large number of SNPs in parallel. The invention also provides a collection of human SNPs that is useful for genetic analysis within and across populations. As such, the invention relatesd to diverse fields impacted by the nature of genetics, including biology, medicine, and medical diagnostics.

US Patent:

7629164, Dec 8, 2009

Filed:

Jul 13, 2004

Appl. No.:

10/891260

Inventors:

Hajime Matsuzaki - Palo Alto CA, US
Rui Mei - Santa Clara CA, US

Assignee:

Affymetrix, Inc. - Santa Clara CA

International Classification:

C12M 1/34
C12M 3/00
C07H 21/04
C12Q 1/68

US Classification:

4352872, 536 231, 536 243, 435 911

Abstract:

The invention provides nucleic acid sequences that are complementary, in one embodiment, to a collection of human single nucleotide polymorphisms. The invention provides the sequences in such a way as to make them available for a variety of analyses including genotyping a large number of SNPs in parallel by, for example, allele specific hybridization. The invention also provides a collection of human SNPs that is useful for genetic analysis within and across populations. As such, the invention relates to diverse fields impacted by the nature of genetics, including biology, medicine, and medical diagnostics.

US Patent:

8029999, Oct 4, 2011

Filed:

Oct 18, 2007

Appl. No.:

11/874858

Inventors:

Hajime Matsuzaki - Palo Alto CA, US
Xing Su - Cupertino CA, US
Sean Walsh - Danville CA, US
Giulia Kennedy - San Francisco CA, US
Rui Mei - Santa Clara CA, US

Assignee:

Affymetrix, Inc. - Santa Clara CA

International Classification:

C12Q 1/68

US Classification:

435 612, 536 2431

Abstract:

The presently claimed invention provides for novel methods and kits for analyzing a collection of target sequences in a nucleic acid sample. A sample is amplified under conditions that enrich for a subset of fragments that includes a collection of target sequences. The invention further provides for analysis of the above sample by hybridization to an array, which may be specifically designed to interrogate the collection of target sequences for particular characteristics, such as, for example, the presence or absence of one or more polymorphisms.

US Patent:

7361468, Apr 22, 2008

Filed:

Jul 5, 2005

Appl. No.:

11/175859

Inventors:

Guoying Liu - Emeryville CA, US
Simon Cawley - Oakland CA, US
Hajime Matsuzaki - Palo Alto CA, US
Earl A. Hubbell - Palo Alto CA, US
Geoffrey Yang - San Jose CA, US
Teresa A. Webster - Santa Clara CA, US
Rui Mei - Santa Clara CA, US
Xiaojun Di - Cupertino CA, US
Richard Chiles - Castro Valley CA, US

Assignee:

Affymetrix, Inc. - Santa Clara CA

International Classification:

C12Q 1/68
C07H 21/04
C12M 3/00
C12M 1/34

US Classification:

435 6, 4352872, 435 911, 536 231, 536 243

Abstract:

Methods, kits and arrays of nucleic acid probes for genotyping large numbers of human SNPs in parallel are provided. A set of more than 100,000 human SNPs, known to be biallelic in at least two populations is provided. Allele specific perfect match probes and genotyping probe sets are provided for each allele of each biallelic SNP in a set of human SNPs that is useful for genetic analysis within and across populations. Probe sets that include perfect match and mismatch probes are provided. The probe sets are suitable for inclusion in an array. The invention provides the SNP and surrounding sequence and provides the sequences in such a way as to make them available for a variety of analyses including genotyping. As such, the invention relates to diverse fields impacted by the nature of genetics, including biology, medicine, and medical diagnostics.

US Patent:

20030203399, Oct 30, 2003

Filed:

Jun 18, 2003

Appl. No.:

10/465363

Inventors:

Yanxiang Cao - Palo Alto CA, US
David Lockhart - Mountain View CA, US
Rui Mei - Santa Clara CA, US
Xing Su - Cupertino CA, US

International Classification:

C12Q001/68
C12P019/34
C07H021/04

US Classification:

435/006000, 435/091200, 536/023100

Abstract:

The proportional amplification of nucleic acids can increase the amount of nucleic acids while preserving the relative abundance of the individual nucleic acid species, or portions thereof, in the original sample. A proportionally amplified nucleic acid preparation may be analyzed in a gene expression monitoring system, preferably involving a nucleic acid probe array.

US Patent:

20040259124, Dec 23, 2004

Filed:

Feb 19, 2004

Appl. No.:

10/782614

Inventors:

Stefan Bekiranov - Oakland CA, US
Rui Mei - Santa Clara CA, US
Mei-Mei Shen - Cupertino CA, US
Teresa Webster - Santa Clara CA, US

Assignee:

Affymetrix, INC. - Santa Clara CA

International Classification:

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

US Classification:

435/006000, 702/020000

Abstract:

The present invention includes methods for predicting the quantitative response of probes on a microarray. In a preferred embodiment, sequence dependent parameters are predicted and then used to predict probe response.

US Patent:

20050003369, Jan 6, 2005

Filed:

Oct 10, 2003

Appl. No.:

10/684205

Inventors:

Frederick Christians - Los Altos CA, US
Rui Mei - Santa Clara CA, US
Kai Wu - Mountain View CA, US
Charles Miyada - San Jose CA, US

Assignee:

Affymetrix, INC. - Santa Clara CA

International Classification:

C12Q001/68

US Classification:

435006000

Abstract:

The presently claimed invention provides methods, compositions, and apparatus for analyzing nucleic acids isolated from blood. Specifically, the present invention provides a method of analyzing blood samples by blocking amplification of selected unwanted RNAs and subsequently analyzing the amplified sample by hybridization to a plurality of probes attached to a solid support. In one embodiment, the invention provides enriching for a population of interest in a complex population by diminishing the presence of an unwanted sequence that may interfere with the analysis of sequences of interest.