Mark S Kokoris

US Patent:

8222023, Jul 17, 2012

Filed:

Sep 10, 2008

Appl. No.:

12/207627

Inventors:

C. Frederick Battrell - Redmond WA, US
John Gerdes - Columbine Valley CO, US
John R. Williford - Sammamish WA, US
Denise Maxine Hoekstra - Monroe WA, US
Wayne L. Breidford - Seattle WA, US
Stephen Mordue - Kirkland WA, US
John Clemmens - Redmond WA, US
Melud Nabavi - Seattle WA, US
Mark Kokoris - Bothell WA, US

Assignee:

Micronics, Inc. - Redmond WA

International Classification:

C12M 1/34

US Classification:

4352872, 4352885, 4352865

Abstract:

Integrated microfluidic cartridges for nucleic acid extraction, amplification, and detection from clinical samples are disclosed. The devices are single-entry, sanitary, and disposable. The devices enable simplex or multiplex nucleic acid target detection, as for example: assay panels for multiple infectious agents, or assay panels for cancerous cell types. Methods for use of microfluidic cartridges in a fully automated, pneumatically controlled apparatus are also disclosed.

US Patent:

8324360, Dec 4, 2012

Filed:

Mar 30, 2011

Appl. No.:

13/075861

Inventors:

Mark Stamatios Kokoris - Bothell WA, US
Robert N. McRuer - Mercer Island WA, US

Assignee:

Stratos Genomics, Inc. - Seattle WA

International Classification:

C07H 21/02
C12Q 1/68

US Classification:

536 231, 435 6

Abstract:

Nucleic acid sequencing methods and related products are disclosed. Methods for sequencing a target nucleic acid comprise providing a daughter strand produced by a template-directed synthesis, the daughter strand comprising a plurality of subunits coupled in a sequence corresponding to a contiguous nucleotide sequence of all or a portion of the target nucleic acid, wherein the individual subunits comprise a tether, at least one probe or nucleobase residue, and at least one selectively cleavable bond. The selectively cleavable bond(s) is/are cleaved to yield an Xpandomer of a length longer than the plurality of the subunits of the daughter strand, the Xpandomer comprising the tethers and reporter elements for parsing genetic information in a sequence corresponding to the contiguous nucleotide sequence of all or a portion of the target nucleic acid. Reporter elements of the Xpandomer are then detected. Corresponding products, including Xpandomers and oligomeric and monomeric substrate constructs are also disclosed.

US Patent:

8349565, Jan 8, 2013

Filed:

Mar 30, 2011

Appl. No.:

13/075864

Inventors:

Mark Stamatios Kokoris - Bothell WA, US
Robert N. McRuer - Mercer Island WA, US

Assignee:

Stratos Genomics, Inc. - Seattle WA

International Classification:

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

US Classification:

435 612, 435 912, 536 2431, 536 2432

Abstract:

Nucleic acid sequencing methods and related products are disclosed. Methods for sequencing a target nucleic acid comprise providing a daughter strand produced by a template-directed synthesis, the daughter strand comprising a plurality of subunits coupled in a sequence corresponding to a contiguous nucleotide sequence of all or a portion of the target nucleic acid, wherein the individual subunits comprise a tether, at least one probe or nucleobase residue, and at least one selectively cleavable bond. The selectively cleavable bond(s) is/are cleaved to yield an Xpandomer of a length longer than the plurality of the subunits of the daughter strand, the Xpandomer comprising the tethers and reporter elements for parsing genetic information in a sequence corresponding to the contiguous nucleotide sequence of all or a portion of the target nucleic acid. Reporter elements of the Xpandomer are then detected. Corresponding products, including Xpandomers and oligomeric and monomeric substrate constructs are also disclosed.

US Patent:

8586301, Nov 19, 2013

Filed:

Jun 30, 2011

Appl. No.:

13/174054

Inventors:

Mark Stamatios Kokoris - Bothell WA, US
Robert N. McRuer - Mercer Island WA, US

Assignee:

Stratos Genomics, Inc. - Seattle WA

International Classification:

C12Q 1/68
C07H 21/02
C07H 21/04

US Classification:

435 61, 536 231, 536 243

Abstract:

A method for the rapid identification of a target nucleic acid sequence is provided, as well as corresponding devices, products and kits. Such methods are useful for the rapid detection, identification and/or quantification of target nucleic acid sequences associated with, for example, a pathogen.

US Patent:

8592182, Nov 26, 2013

Filed:

Oct 23, 2008

Appl. No.:

12/738884

Inventors:

Mark Stamatios Kokoris - Bothell WA, US
Robert N. McRuer - Mercer Island WA, US

Assignee:

Stratos Genomics Inc. - Seattle WA

International Classification:

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

US Classification:

435 911, 435 61, 536 231, 536 243, 536 253

Abstract:

Nucleic acid sequencing methods and related devices, products and kits are disclosed. Methods for sequencing a target nucleic acid comprise providing a daughter strand produced by a template-directed synthesis, the daughter strand comprising a plurality of subunits coupled in a sequence corresponding to a contiguous nucleotide sequence of all or a portion of the target nucleic acid, wherein the individual subunits comprise a probe and a reporter construct. The subunit encodes sequence information in its reporter construct that is less than sequence information in the corresponding portion of the target nucleic acid. The reduced information allows for reduced resolution requirements on the detection system and for increased size of resolvable reporter groups.

US Patent:

20060246575, Nov 2, 2006

Filed:

Jan 13, 2006

Appl. No.:

11/331587

Inventors:

Christy Lancaster - Seattle WA, US
C. Battrell - Redmond WA, US
Jason Capodanno - Redmond WA, US
John Gerdes - Columbine Valley CO, US
Mark Kokoris - Bothell WA, US
Melud Nabavi - Seattle WA, US
Stephen Mordue - Seattle WA, US
Robert McRuer - Mercer Island WA, US
John Clemmens - Redmond WA, US
Wayne Breidford - Seattle WA, US

Assignee:

Micronics, Inc. - Redmond WA

International Classification:

C12M 1/34

US Classification:

435287200, 435288500

Abstract:

The present invention relates to microfluidic devices and methods for detecting rare cells. The disclosed microfluidic devices and methods integrate and automate sample preparation, cell labeling, cell sorting and enrichment, and DNA/RNA analysis of sorted cells.

US Patent:

20090035777, Feb 5, 2009

Filed:

Jun 19, 2008

Appl. No.:

12/142221

Inventors:

Mark Stamatios Kokoris - Bothell WA, US
Robert N. McRuer - Mercer Island WA, US

International Classification:

C12Q 1/68
C07H 21/00

US Classification:

435 6, 536 243

Abstract:

Nucleic acid sequencing methods and related products are disclosed. Methods for sequencing a target nucleic acid comprise providing a daughter strand produced by a template-directed synthesis, the daughter strand comprising a plurality of subunits coupled in a sequence corresponding to a contiguous nucleotide sequence of all or a portion of the target nucleic acid, wherein the individual subunits comprise a tether, at least one probe or nucleobase residue, and at least one selectively cleavable bond. The selectively cleavable bond(s) is/are cleaved to yield an Xpandomer of a length longer than the plurality of the subunits of the daughter strand, the Xpandomer comprising the tethers and reporter elements for parsing genetic information in a sequence corresponding to the contiguous nucleotide sequence of all or a portion of the target nucleic acid. Reporter elements of the Xpandomer are then detected. Corresponding products, including Xpandomers and oligomeric and monomeric substrate constructs are also disclosed.

US Patent:

20090148847, Jun 11, 2009

Filed:

Sep 3, 2008

Appl. No.:

12/203779

Inventors:

Mark Kokoris - Bothell WA, US
Melud Nabavi - Seattle WA, US
Wayne L. Breidford - Seattle WA, US
John Gerdes - Columbine Valley CO, US
Stephen Mordue - Kirkland WA, US
C. Frederick Battrell - Redmond WA, US

Assignee:

MICRONICS, INC. - Redmond WA

International Classification:

C12Q 1/68
C07H 21/04
B01J 19/00

US Classification:

435 6, 536 2433, 42218601

Abstract:

Disclosed is an improvement in methods for nucleic acid and immunological bioassays. The methods comprise a step for “sweeping” paramagnetic bead: target molecule complexes so as to capture them with an affinity capture agent on a test pad by moving a magnetic force field from outside to inside the test pad area so as to bring into contact the paramagnetic complexes with the capture agent, while sweeping any unbound paramagnetic material off the test pad by moving the magnetic field from inside to outside the test pad area. Surprisingly, the paramagnetic complexes are rapidly affinity-extracted from the moving magnetic field.