James Patrick O'Connell

US Patent:

6989086, Jan 24, 2006

Filed:

Jul 13, 2001

Appl. No.:

09/905755

Inventors:

Jing Cheng - San Diego CA, US
Lei Wu - San Diego CA, US
James P. O'Connell - San Diego CA, US

Assignee:

Nanogen, Inc. - San Diego CA

International Classification:

G01N 27/26
G01N 27/447

US Classification:

204547, 204643, 4351737, 4351739

Abstract:

The present invention comprises devices and methods for performing channel-less separation of cell particles by dielectrophoresis, DC high voltage-pulsed electronic lysis of separated cells, separation of desired components from crude mixtures such as cell lysates, and/or enzymatic reaction of such lysates, all of which can be conducted on a single bioelectronic chip. A preferred embodiment of the present invention comprises a cartridge () including a microfabricated silicon chip () on a printed circuit board () and a flow cell () mounted to the chip () to form a flow chamber. The cartridge () also includes output pins () for electronically connecting the cartridge () to an electronic controller. The chip () % includes a plurality of circular microelectrodes () which are preferably coated with a protective permeation layer. Specific cells from various cell mixtures were separated, lysed, and enzymatically digested on the chip.

US Patent:

7172896, Feb 6, 2007

Filed:

Jun 5, 2002

Appl. No.:

10/163835

Inventors:

Jing Cheng - Bejing, CN
Lei Wu - San Diego CA, US
Michael J. Heller - Encinitas CA, US
Ed Sheldon - Arcadia CA, US
Jonathan Diver - San Diego CA, US
James P. O'Connell - Solana Beach CA, US
Dan Smolko - Jamul CA, US
Shila Jalali - San Diego CA, US
David Willoughby - San Diego CA, US

Assignee:

Nanogen, Inc. - San Diego CA

International Classification:

C12M 3/00

US Classification:

4352871, 4352872, 4352885, 20440301

Abstract:

We have performed separation of bacterial and cancer cells from peripheral human blood in microfabricated electronic chips by dielectrophoresis. The isolated cells were examined by staining the nuclei with fluorescent dye followed by laser induced fluorescence imaging. We have also released DNA and RNA from the isolated cells electronically and detected specific marker sequences by DNA amplification followed by electronic hybridization to immobilized capture probes. Efforts towards the construction of a “laboratory-on-a-chip” system are presented which involves the selection of DNA probes, dyes, reagents and prototyping of the fully integrated portable instrument.

US Patent:

7315784, Jan 1, 2008

Filed:

Feb 15, 2001

Appl. No.:

09/784720

Inventors:

Klaus Abraham-Fuchs - Erlangen, DE
Arne Hengerer - Erlangen, DE
Norbert Windhab - Hofheim, DE
Kieran T. Gallahue - San Diego CA, US
James P. O'Connell - Solana Beach CA, US
Greg Gosch - Carlsbad CA, US

Assignee:

Siemens Aktiengesellschaft - Munich
Nanogen, Inc. - San Diego CA

International Classification:

G06F 19/00
G01N 33/48
A61B 5/00
C12Q 1/00

US Classification:

702 19, 702 22, 702189, 600300, 4352871, 435 4

Abstract:

In a method and a network for evaluating medical data in a clinical study, biochips containing patient samples with multiple biomolecular markers are tested in a number of point of care test devices respectively at point of care sites. Each test of each biochip sample produces a diagnostic result, which is entered into the electronic patient record for the patient who produced the sample. A follow-up examination is subsequently conducted for each patient, and the results of the follow-up examination are also entered into that patient's electronic patient record. The follow-up results indicate whether the diagnostic test result was a false positive, a false negative or correct. The follow-up data and the original diagnostic results from all point of care sites are electronically transmitted to a remote server, which has access to an expert system which uses the test results and the follow-up data to automatically devise a measurement protocol for a selected pathology.

US Patent:

7582421, Sep 1, 2009

Filed:

Sep 16, 2002

Appl. No.:

10/245206

Inventors:

Ronald G. Sosnowski - Coronado CA, US
Michael I. Nerenberg - La Jolla CA, US
David M. Canter - San Diego CA, US
Ray R. Radtkey - San Diego CA, US
Ling Wang - San Diego CA, US
James P. O'Connell - Solana Beach CA, US

Assignee:

Nanogen, Inc. - San Diego CA

International Classification:

C12Q 1/68
C12P 19/34
C07H 21/02
C07H 21/04
C07H 21/00

US Classification:

435 6, 435 911, 435 912, 536 231, 536 243, 536 2433, 536 253, 536 2532

Abstract:

This application includes methods for detecting single nucleotide polymorphisms (SNPs) in a sample using an electronically addressable microchip having a plurality of test sites. A sample nucleic acid is electronically biased, concentrated at, and immobilized to a test site on the microchip. A mixture comprising a first labeled probe and a second labeled probe is electronically hybridized to the sample nucleic acid to form first or second hybridized complexes. The first labeled probe is perfectly complementary to the first sample nucleic acid and the second labeled probe is complementary to the sample nucleic acid and contains a nucleotide that forms a mismatch with the nucleotide at the site of the polymorphism. The first or second hybridized complexes are detected by determining a signal intensity of the label of the first or second probe.

US Patent:

7704726, Apr 27, 2010

Filed:

Aug 17, 2006

Appl. No.:

11/505679

Inventors:

Michael James Heller - Encinitas CA, US
James Patrick O'Connell - Del Mar CA, US
Robert David Juncosa - Mission Viejo CA, US
Ronald George Sosnowski - Coronado CA, US
Thomas Ratcliffe Jackson - San Diego CA, US

Assignee:

Gamida For Life B.V. - Rotterdam

International Classification:

C12M 1/36
G01N 15/06

US Classification:

4352831, 4352872, 422 681, 422 8201

Abstract:

A system for performing molecular biological diagnosis, analysis and multistep and multiplex reactions utilizes a selfaddressable, selfassembling microelectronic system for actively carrying out controlled reactions in microscopic formats. The device includes a power supply and waveform generator adapted to supply a DC bias and superimposed AC signal to the system through an interface to the array of microlocations.

US Patent:

7857957, Dec 28, 2010

Filed:

Feb 5, 2007

Appl. No.:

11/702417

Inventors:

Jing Cheng - Bejing, CN
Lei Wu - San Diego CA, US
Michael J. Heller - Encinitas CA, US
Edward L. Sheldon - Arcadie CA, US
Jonathan M. Diver - San Diego CA, US
James P. O'Connell - Solana Beach CA, US
Dan Smolko - Jamul CA, US
Shila Jalali - San Diego CA, US
David Willoughby - San Diego CA, US

Assignee:

Gamida for Life B.V. - Rotterdam

International Classification:

G01N 27/447
C12N 1/06

US Classification:

204600, 204643, 435259, 4353061

Abstract:

We have performed separation of bacterial and cancer cells from peripheral human blood in microfabricated electronic chips by dielectrophoresis. The isolated cells were examined by staining the nuclei with fluorescent dye followed by laser induced fluorescence imaging. We have also released DNA and RNA from the isolated cells electronically and detected specific marker sequences by DNA amplification followed by electronic hybridization to immobilized capture probes. Efforts towards the construction of a “laboratory-on-a-chip” system are presented which involves the selection of DNA probes, dyes, reagents and prototyping of the fully integrated portable instrument.

US Patent:

20010014449, Aug 16, 2001

Filed:

Apr 12, 1999

Appl. No.:

09/291129

Inventors:

MICHAEL I. NERENBERG - LA JOLLA CA, US
DAVID M. CANTER - SAN DIEGO CA, US
RAY R. RADTKEY - SAN DIEGO CA, US
LING WANG - San Diego CA, US
JAMES O'CONNELL - Solana Beach CA, US

International Classification:

C12Q001/68

US Classification:

435/006000, 422/050000, 422/068100

Abstract:

Methods are provided for the analysis and determination of the nature of single nucleic acid polymorphisms (SNPs) in a genetic target. In one method of this invention, the nature of the SNPs in the genetic target is determined by the steps of providing a plurality of hybridization complexes arrayed on a plurality of test sites on an electronically bioactive microchip, where the hybridization complex includes at least a nucleic acid target containing a SNP, a stabilizer probe having a sequence complementary to the target sequence and/or reporter probe, and a reporter probe having a selected sequence complementary to either the stabilizer or the same target sequence strand wherein a selected sequence of the reporter includes either a wild type nucleotide or a nucleotide corresponding to the SNP of the target. In accordance with the invention, the stabilizer, reporter and target amplicons are hybridized using electronic assistance of the microchip system such that base-stacking energies are utilized in discerning among other identifying indicators, the presence of wild type or polymorphism sequence. Applications include disease diagnostics, such as for the identification of polymorphisms in structural genes, regulatory regions, antibiotic or chemotherapeutic resistance conferring regions, or for SNPs associated with speciation or used for determination of genetic linkage.

US Patent:

20020108859, Aug 15, 2002

Filed:

Nov 14, 2001

Appl. No.:

09/993389

Inventors:

Mark Wang - San Diego CA, US
Eugene Tu - San Diego CA, US
James O'Connell - Del Mar CA, US
Kristie Lykstad - San Diego CA, US
William Butler - La Jolla CA, US

Assignee:

Genoptix

International Classification:

G01N027/26
G01N027/447

US Classification:

204/547000, 204/451000, 204/601000, 204/643000

Abstract:

Apparatus and methods are provided for interacting light with particles, including but not limited to biological matter such as cells, in unique and highly useful ways. Optophoresis consists of subjecting particles to various optical forces, especially optical gradient forces, and more particularly moving optical gradient forces, so as to obtain useful results. In biology, this technology represents a practical approach to probing the inner workings of a living cell, preferably without any dyes, labels or other markers. In one aspect, a method is provided for reducing forces between a particle and a surface in a system for optically moving particles by providing particles adjacent a first surface, subjecting the particles to a first light intensity pattern to effect sorting of the particles, and subjecting the particles to a second force in an amount and direction to reduce the interaction between the particle and the surface.