Sushma Pati

US Patent:

6524856, Feb 25, 2003

Filed:

Dec 11, 1998

Appl. No.:

09/209676

Inventors:

Sushma Pati - Redwood City CA
David A. Zarling - Menlo Park CA
Hong Zeng - Cupertino CA

Assignee:

Pangene Corporation - Fremont CA

International Classification:

C12N 1563

US Classification:

435463, 435462, 435455, 4353201, 435325, 536 231, 536 235, 514 44, 424 932

Abstract:

The invention relates to compositions and methods for targeting sequence modifications in one or more genes of a related family of genes using enhanced homologous recombination techniques. These techniques may be used to create animal or plant models of disease as well as to identify new targets for drug or pathogen screening.

US Patent:

20010044107, Nov 22, 2001

Filed:

Dec 28, 2000

Appl. No.:

09/751671

Inventors:

David Zarling - Menlo Park CA, US
Gurucharan Reddy - Fremont CA, US
Sushma Pati - Woodside CA, US

International Classification:

C12Q001/68
C12N011/16

US Classification:

435/006000, 435/174000, 438/001000

Abstract:

The present invention is directed to the use of recombinases such as recA to mediate the detection of target sequences on gene chips.

US Patent:

20020032530, Mar 14, 2002

Filed:

Feb 12, 2001

Appl. No.:

09/782171

Inventors:

Sushma Pati - Woodside CA, US
Raya Zion - Burlingame CA, US
Ian Black - Piedmont CA, US
Christopher Lehman - Sunnyvale CA, US
Ron Caspi - Mountain View CA, US
Kathryn Stephens - Fremont CA, US
David Zarling - Menlo Park CA, US

International Classification:

G06F017/60
G06F019/00
G01N033/48
G01N033/50

US Classification:

702/020000, 705/002000

Abstract:

The present invention is directed to methods and systems for integrating the provision of genomics services and the production of genomics products. In one aspect of the invention, a method is provided for integrated genomic services comprising (a) receiving a first request from a customer, wherein said request comprises a first nucleic acid sequence, and an order for at least two genomics products or services; and (b) utilizing said nucleic acid sequence to provide said at least two genomics services or products.

US Patent:

20020108136, Aug 8, 2002

Filed:

Aug 9, 2001

Appl. No.:

09/927160

Inventors:

Sushma Pati - Redwood City CA, US
David Zarling - Menlo Park CA, US

Assignee:

SRI

International Classification:

A01K067/027

US Classification:

800/014000, 800/015000, 800/016000, 800/017000, 800/018000

Abstract:

The invention relates to methods and compositions for producing transgenic animals by targeted homologous recombination comprising targeting an exogenous polynucleotide or exogenous complementary polynucleotide pair to a predetermined endogenous DNA target sequence in a target cell by homologous pairing, particularly for altering an endogenous DNA sequence, such as a chromosomal DNA sequence. In certain embodiments, the invention relates to compositions that contain exogenous targeting polynucleotides, complementary pairs of exogenous targeting polynucleotides, chemical substituents of such polynucleotides, and recombinase proteins used in the methods of the invention.

US Patent:

20020152494, Oct 17, 2002

Filed:

Dec 23, 1999

Appl. No.:

09/470859

Inventors:

ROY SARGENT - MOUNTAIN VIEW CA, US
ANNE VALLERGA - MENLO PARK CA, US
SUSHMA PATI - LOS ALTOS CA, US
DAVID ZARLING - MENLO PARK CA, US

International Classification:

A01K067/027
A01N001/02
C12N015/00

US Classification:

800/024000, 435/001100, 600/033000

Abstract:

A method comprising: a) altering a chromosomal sequence of a donor nucleus of a donor cell by introducing a pair of single-stranded targeting polynucleotides, and a recombinase into said donor nucleus of said donor cell, wherein said pair of targeting polynucleotides are substantially complementary to each other and each comprising a homology clamp that substantially corresponds to or is substantially complementary to a predetermined DNA sequence of said nucleus; and, b) transplanting said nucleus into an oocyte to produce a recombinant zygote. A method of altering a nucleic acid sequence of a mitochondria or chloroplast of a cell comprising: introducing into a cell a pair of single-stranded targeting polynucleotides, and recombinase, wherein said pair of targeting polynucleotides are substantially complementary to each other, and each comprising a homology clamp that substantially corresponds to or is substantially complementary to a predetermined nucleic acid sequence of said mitochondria or chloroplast, whereby said sequence is altered.

US Patent:

20030082551, May 1, 2003

Filed:

Sep 28, 2001

Appl. No.:

09/967323

Inventors:

David Zarling - Menlo Park CA, US
Ron Caspi - Mountain View CA, US
Kathryn Stephens - Fremont CA, US
Roy Sergeant - San Lorenzo CA, US
Christopher Lehman - Sunnyvale CA, US
Sushma Pati - Woodside CA, US

International Classification:

C12Q001/68
G06F019/00
G01N033/48
G01N033/50
C12P019/34

US Classification:

435/006000, 435/091200, 702/020000

Abstract:

The invention relates to the use of high-throughput methods for gene targeting, recombination, phenotype screening and biovalidation of drug targets utilizing enhanced homologous recombination (EHR) techniques. These methods utilize robotically driven multichannel pipetters to perform liquid, particle, cell and organism handling, robotically controlled plate and sample handling platforms, magnetic probes and affinity probes to selectively capture nucleic acid hybrids, and thermally regulated plates or blocks for temperature controlled reactions.

US Patent:

20030105039, Jun 5, 2003

Filed:

Nov 20, 2001

Appl. No.:

09/990433

Inventors:

David Zarling - Menlo Park CA, US
Elissa Sena - Palo Alto CA, US
Sushma Pati - Redwood City CA, US

International Classification:

A61K048/00
C12Q001/68
C12N015/85
C12N015/74

US Classification:

514/044000, 435/006000, 435/455000, 435/472000

Abstract:

The invention relates to methods for targeting an exogenous polynucleotide or exogenous complementary polynucleotide pair to a predetermined endogenous DNA target sequence in a target cell by homologous pairing, particularly for altering an endogenous DNA sequence, such as a chromosomal DNA sequence, typically by targeted homologous recombination. In certain embodiments, the invention relates to methods for targeting an exogenous polynucleotide having a linked chemical substituent to a predetermined endogenous DNA sequence in a metabolically active target cell, generating a DNA sequence-specific targeting of one or more chemical substituents in an intact nucleus of a metabolically active target cell, generally for purposes of altering a predetermined endogenous DNA sequence in the cell. The invention also relates to compositions that contain exogenous targeting polynucleotides, complementary pairs of exogenous targeting polynucleotides, chemical substituents of such polynucleotides, and recombinase proteins used in the methods of the invention.

US Patent:

20030124505, Jul 3, 2003

Filed:

Mar 22, 2000

Appl. No.:

09/532708

Inventors:

Sarita Jain - San Francisco CA, US
Elizabeth Allen - Santa Clara CA, US
Sushma Pati - Los Altos CA, US
Roy Sargent - Mountain View CA, US
David Zarling - Menlo Park CA, US

International Classification:

C12Q001/00
C12Q001/68
C12N015/87

US Classification:

435/004000, 435/006000, 435/455000

Abstract:

The invention relates to the use of high-throughput methods for gene targeting, recombination, phenotype screening and biovalidation of drug targets utilizing enhanced homologous recombination (EHR) techniques. These methods utilize robotically driven multichannel pipetters to perform liquid, particle, cell and organism handling, robotically controlled plate and sample handling platforms, magnetic probes and affinity probes to selectively capture nucleic acid hybrids, and thermally regulated plates or blocks for temperature controlled reactions.