Peter T Laird, 472131 Wynterbrook Dr, Littleton, CO 80126

7112404, Sep 26, 2006

Dec 10, 2001

10/016505

Peter W. Laird - South Pasadena CA, US
Cindy A. Eads - South Pasadena CA, US
Kathleen D. Danenberg - Altadena CA, US

Epigenomics AG - Berlin

C12Q 1/68
C07H 21/04

435 6, 435 912, 435 9121, 536 2431, 536 2433

There is disclosed an improved high-throughput and quantitative process for determining methylation patterns in genomic DNA samples based on amplifying modified nucleic acid, and detecting methylated nucleic acid based on amplification-dependent displacement of specifically annealed hybridization probes. Specifically, the inventive process provides for treating genomic DNA samples with sodium bisulfite to create methylation-dependent sequence differences, followed by detection with fluorescence-based quantitative PCR techniques. The process is particularly well suited for the rapid analysis of a large number of nucleic acid samples, such as those from collections of tumor tissues.

7553627, Jun 30, 2009

Sep 8, 2006

11/518353

Peter W. Laird - South Pasadena CA, US
Cindy A. Carroll - Arcadia CA, US
Kathleen D. Danenberg - Altadena CA, US

University of Southern California, USC Stevens Center for Innovation - Los Angeles CA

C07H 21/04
C12Q 1/68

435 6, 435 911, 435 912, 435 9121, 536 231, 536 2431, 536 2433

There is disclosed an improved high-throughput and quantitative process for determining methylation patterns in genomic DNA samples based on amplifying modified nucleic acid, and detecting methylated nucleic acid based on amplification-dependent displacement of specifically annealed hybridization probes. Specifically, the inventive process provides for treating genomic DNA samples with sodium bisulfite to create methylation-dependent sequence differences, followed by detection with fluorescence-based quantitative PCR techniques. The process is particularly well suited for the rapid analysis of a large number of nucleic acid samples, such as those from collections of tumor tissues.

7607139, Oct 20, 2009

Apr 18, 2005

11/108384

Peter Laird - Superior CO, US
Josh Lannin - Boulder CO, US

BEA Systems, Inc. - Redwood Shores CA

G06F 3/00
G06F 9/44
G06F 9/46
G06F 13/00
G06F 7/04
G06F 17/30
G06F 15/173
H04L 9/32

719320, 718102, 726 2, 709223

A quiescence mode for a portal allows a portal configuration to be protected from changes. This allows the configuration to be maintained during long running operations without a risk that the portal configuration will be changed during the operation.

7730477, Jun 1, 2010

Sep 26, 2005

11/235773

Peter Laird - Superior CO, US

BEA Systems Inc. - Redwood Shores CA

G06F 9/44

717170, 717169

In accordance with embodiments, there are provided mechanisms and methods for determining an ordering for propagating changes to an application between a first environment and a second environment. These mechanisms and methods can enable embodiments to propagate changes from a first application instance in a first environment to a second application instance in a second environment even when the order of applying the changes is complex or not readily apparent to the propagating device. For example, an embodiment can determine an ordering to apply changes made to a test version in a test environment, tested and then propagated to a production version of the application residing in a production environment. The ability of embodiments to determine an ordering for propagating changes to an application between a first environment and a second environment enable easy capture and transferal of changes to an application.

7735077, Jun 8, 2010

May 3, 2005

11/121143

Peter Laird - Superior CO, US

BEA Systems, Inc. - Redwood Shores CA

G06F 9/44
G06F 17/30

717170, 717173, 707610, 713100

In accordance with embodiments, there are provided mechanisms and methods for determining a select set of changes from a set of changes made to an application instance to propagate to one or more other application instances. These mechanisms and methods can enable embodiments to propagate changes from a first application instance in a first environment to a second application instance in a second environment. For example, an embodiment can enable changes to be made to a test version in a test environment, tested and then propagated to a production version of the application residing in a production environment. The ability of embodiments to propagate changes to other application instances across environments can enable easy capture and transferal of changes to an application.

7752651, Jul 6, 2010

Sep 26, 2005

11/236698

Peter Laird - Superior CO, US
Manish Devgan - Broomfield CO, US

BEA Systems Inc. - Redwood Shores CA

G06F 17/00

726 1

In accordance with embodiments, there are provided mechanisms and methods for propagating security information for an application between a first environment and a second environment. These mechanisms and methods can enable embodiments to propagate changes to security information from a first application instance in a first environment to a second application instance in a second environment. For example, an embodiment can receive security information from an adapter associated with a test version of an application, and then propagate the security information to a production version of the application residing in a production environment. The ability of embodiments to propagate security information between adapters associated with application versions can enable propagation of changes to security information, i. e. , information about changes to permissions, rules, policies and so forth relating to security, between a first environment and a second environment without necessitating taking the production version of the application off line.

7818742, Oct 19, 2010

May 18, 2005

11/131579

Peter Laird - Superior CO, US
Mark Griffith - Issaquah WA, US
Vinod Mehra - Alameda CA, US
Rob Woollen - San Francisco CA, US
Michael Jasnowski - Amherst NH, US

BEA Systems, Inc. - Redwood Shores CA

G06F 9/445
G06F 9/44

717177, 717169, 717172, 717175

A customer portal application can reference a module. The files of the module can be combined with the files of the customer portal application wherein the files of the customer portal application take precedence.

8110361, Feb 7, 2012

May 2, 2006

11/913535

Peter W. Laird - South Pasadena CA, US
Kimberly D. Siegmund - San Marino CA, US
Mihaela Campan - Los Angeles CA, US
Daniel J. Weisenberger - Playa del Rey CA, US
Tiffany I. Long - Chino CA, US

University of Southern California USC Stevens Center for Innovation - Los Angeles CA

C12Q 1/68

435 614, 435 611, 435 612

Particular aspects confirm the existence of a CpG island methylator phenotype (CIMP) in colorectal cancer, and provide novel validated DNA methylation markers associated with CIMP. Additional aspects provide novel methods and compositions for: determining CIMP status in colorectal cancers, determining the relationship between CIMP status and other molecular features of the cancers (e. g. , BRAF mutation, KRAS mutation and MSI status); determining the relationship between CIMP status and other variables (e. g. , age, sex, tumor location, family history, race, country of origin, tumor characteristics (including, tumor type, tumor grade, invasive margin characteristics, lymphocyte infiltration characteristics, direct spread, lymph node spread, venous spread and type of residual adjacent polyp, if present)); and determining, between subgroups defined by CIMP status and BRAF mutations, effects of selected risk factors (e. g. , body mass index, smoking history, alcohol intake, dietary folate intake, folate metabolic enzyme polymorphisms and history of hormonal use).