IP Library › Granted Patent US 12,241,127
Granted Patent B2
US 12,241,127 · App. 18/418,774 · Granted Mar 4, 2025

Methods for sequencing samples

Inventors: Dietrich Stephan (San Francisco, CA); Vern Norviel (San Francisco, CA); Janet Warrington (Los Altos, CA); Doug Dolginow (Basalt, CO)
Assignee: Aqtual, Inc.
C12Q1/6886G01N33/57484C12Q2600/106C12Q2600/112C12Q2600/136C12Q2600/142C12Q2600/154C12Q2600/156C12Q2600/158C12Q2600/16
View Patent ↗
Loading inventors, assignments & file history…
Monitor This Case
Get email alerts when status or documents change.
Order Certified Copies
Most orders are placed with the USPTO same day — all within 24 business hours.
Order via The Patent Place →
Pre-filled with this patent's details
Quick Facts
Patent No.
US 12,241,127
App. No.
18/418,774
Granted
Mar 4, 2025
Kind
B2
Abstract

Personalized medicine involves the use of a patient's molecular markers to guide treatment regimens for the patient. The scientific literature provides multiple examples of correlations between drug treatment efficacy and the presence or absence of molecular markers in a patient sample. Methods are provided herein that permit efficient dissemination of scientific findings regarding treatment efficacy and molecular markers found in patient tumors to health care providers.

Claims (36)

1. A method, comprising:

(a) obtaining a cell-free DNA sample from a subject;

(b) detecting a copy number of a gene in said cell-free DNA sample using massively parallel sequencing, wherein said massively parallel sequencing comprises use of reversibly terminating nucleotides.

2. The method of claim 1 , wherein said cell-free DNA sample comprises nucleic acids of a tumor.

3. The method of claim 1 , wherein (a) comprises isolating said cell-free DNA sample from blood obtained from said subject.

4. The method of claim 1 , wherein said subject has a lung cancer, a non-small-cell lung cancer, a breast cancer, a prostate cancer, a gastric cancer, a head and neck cancer, an advanced gastric adenocarcinoma, a squamous cell carcinoma, a pancreatic adenocarcinoma, Hodgkin's Disease, non-Hodgkin's lymphoma; a testicular carcinoma, a colon cancer, a rectal cancer, an esophageal cancer, a hepatocellular carcinoma, a cholangiocarcinoma, a chronic myeloid leukemia, a chronic lymphocytic leukemia, a small lymphocytic lymphoma, or a follicular lymphoma.

5. The method of claim 1 , wherein performing massively parallel sequencing comprises bridge amplification.

6. The method of claim 1 , wherein said subject has a disease and said copy number is increased relative to normal.

7. The method of claim 1 , wherein (b) comprises detecting a presence of said gene.

8. The method of claim 1 , wherein (b) comprises detecting an absence of said gene.

9. The method of claim 1 , wherein said gene comprises an Epidermal Growth Factor Receptor (EGFR) gene.

10. The method of claim 9 , wherein said EGFR gene comprises a mutation in exons 18-21.

11. The method of claim 1 , wherein said gene comprises a Serine/Threonine Kinase B-Raf Proto-Oncogene (BRAF) gene.

12. The method of claim 11 , wherein said BRAF gene encodes a V600E mutation.

13. The method of claim 1 , wherein said gene comprises a GTPase KRAS Proto-Oncogene (KRAS) gene.

14. The method of claim 13 , wherein said KRAS gene encodes a mutation in exon 2.

15. The method of claim 1 , wherein said gene comprises a Phosphatase And Tensin Homolog (PTEN) gene.

16. The method of claim 1 , wherein said gene comprises a Receptor Tyrosine Kinase KIT Proto-Oncogene (KIT) gene.

17. The method of claim 1 , wherein said gene comprises a Phosphatidylinositol-4,5-Bisphosphate 3-Kinase Catalytic Subunit Alpha (PIK3CA) gene.

18. The method of claim 1 , wherein said gene comprises a promoter.

19. The method of claim 18 , wherein said gene further comprises a methylation modification.

20. The method of claim 18 , wherein said gene does not further comprise a methylation modification.

21. The method of claim 1 , further comprising generating a report comprising a cancer treatment option, wherein said cancer treatment option is based at least partially on said copy number detected in (b).

22. The method of claim 21 , wherein said cancer treatment option comprises a drug treatment selected from the group consisting of imatinib, cetuximab, panitumumab, 5-fluorouracil (5-FU), and temozolmide.

23. The method of claim 21 , wherein said cancer treatment option comprises an adjuvant therapy.

24. The method of claim 1 , further comprising generating a report, wherein said report comprises a technique used for detecting said copy number.

25. The method of claim 1 , wherein detecting said copy number is performed in a Clinical Laboratory Improvement Amendments (CLIA) certified laboratory.

26. The method of claim 1 , further comprising:

obtaining an additional sample after obtaining said cell-free DNA sample, wherein said additional sample comprises nucleic acid;

performing additional massively parallel sequencing of said additional sample; and

determining an additional copy number of said additional sample based on said additional massively parallel sequencing, wherein said additional massively parallel sequencing comprises use of reversibly terminating nucleotides.

27. The method of claim 26 , further comprising:

comparing said copy number of said cell-free DNA sample with said additional copy number of said additional sample;

determining a disease progression status of a subject based on said comparing; and

generating a report comprising a treatment option, wherein said treatment option is based at least partially on said disease progression status.

28. The method of claim 26 , wherein said additional sample is a cell-free DNA sample.

Assignments (5)
CHANGE OF NAME Recorded Mar 7, 2024
From: BLOODQ, INC.
To: AQTUAL, INC.
Reel/Frame 066761/0440 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 5, 2024
From: AUEON, INC.
To: BLOODQ, INC.
Reel/Frame 066658/0277 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 1, 2024
From: TOMA BIOSCIENCES, INC.
To: AUEON, INC.
Reel/Frame 066623/0571 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Feb 28, 2024
From: AUEON, INC.
To: TOMA BIOSCIENCES, INC.
Reel/Frame 066595/0365 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Feb 27, 2024
From: STEPHAN, DIETRICH; NORVIEL, VERN; WARRINGTON, JANET; DOLGINOW, DOUG
To: AUEON, INC.
Reel/Frame 066580/0885 →
Continuity (10)
Continuation 16154307 · Oct 8, 2018
Continuation 15183655 · Jun 15, 2016
Division 14927254 · Oct 29, 2015
Continuation 14075996 · Nov 8, 2013
Continuation 13060425
Provisional Application 61231287 · Aug 4, 2009
Provisional Application 61173179 · Apr 27, 2009
Provisional Application 61155477 · Feb 25, 2009
Provisional Application 61094855 · Sep 5, 2008
Related Publication 20240158867A1 · May 16, 2024
References Cited (400)
US 3575220A · Davis et al. · 1971 [cited by applicant]
US 3996345A · Ullman et al. · 1976 [cited by applicant]
US 4351760A · Khanna et al. · 1982 [cited by applicant]
US 4458066A · Caruthers et al. · 1984 [cited by applicant]
US 4683202A · Mullis · 1987 [cited by applicant]
US 4739044A · Stabinsky · 1988 [cited by applicant]
US 4757141A · Fung et al. · 1988 [cited by applicant]
US 4889818A · Gelfand et al. · 1989 [cited by applicant]
US 4997928A · Hobbs, Jr. · 1991 [cited by applicant]
US 5231191A · Woo et al. · 1993 [cited by applicant]
US 5487972A · Gelfand et al. · 1996 [cited by applicant]
US 5496699A · Sorenson · 1996 [cited by applicant]
US 5538848A · Livak et al. · 1996 [cited by applicant]
US 5539083A · Cook et al. · 1996 [cited by applicant]
US 5585069A · Zanzucchi et al. · 1996 [cited by applicant]
US 5635400A · Brenner · 1997 [cited by applicant]
US 5677152A · Birch et al. · 1997 [cited by applicant]
US 5723591A · Livak et al. · 1998 [cited by applicant]
US 5750341A · Macevicz · 1998 [cited by applicant]
US 5773258A · Birch et al. · 1998 [cited by applicant]
US 5789206A · Tavtigian et al. · 1998 [cited by applicant]
US 5789224A · Gelfand et al. · 1998 [cited by applicant]
US 5804375A · Gelfand et al. · 1998 [cited by applicant]
US 5827480A · Haff et al. · 1998 [cited by applicant]
US 5925517A · Tyagi et al. · 1999 [cited by applicant]
US 5952170A · Stroun et al. · 1999 [cited by applicant]
US 5981179A · Lorinez et al. · 1999 [cited by applicant]
US 5994056A · Higuchi · 1999 [cited by applicant]
US 6008002A · Bodey · 1999 [cited by applicant]
US 6030787A · Livak et al. · 2000 [cited by applicant]
US 6040138A · Lockhart et al. · 2000 [cited by applicant]
US 6063604A · Wick et al. · 2000 [cited by applicant]
US 6090591A · Burg et al. · 2000 [cited by applicant]
US 6103406A · Kumagai · 2000 [cited by applicant]
US 6127155A · Gelfand et al. · 2000 [cited by applicant]
US 6156504A · Gocke et al. · 2000 [cited by applicant]
US 6171785B1 · Higuchi · 2001 [cited by applicant]
US 6184934B1 · Nishiki · 2001 [cited by applicant]
US 6204375B1 · Lader · 2001 [cited by applicant]
US 6214979B1 · Gelfand et al. · 2001 [cited by applicant]
US 6217866B1 · Schlessinger et al. · 2001 [cited by applicant]
US 6221589B1 · Lane et al. · 2001 [cited by applicant]
US 6262242B1 · Steck et al. · 2001 [cited by applicant]
US 6303312B1 · Dervan et al. · 2001 [cited by applicant]
US 6306597B1 · Macevicz · 2001 [cited by applicant]
US 6321894B1 · Johnsson · 2001 [cited by applicant]
US 6410231B1 · Arnold et al. · 2002 [cited by applicant]
US 6410243B1 · Wyrick et al. · 2002 [cited by applicant]
US 6482795B1 · Steck et al. · 2002 [cited by applicant]
US 6488895B1 · Kennedy · 2002 [cited by applicant]
US 6492161B1 · Hjoerleifsdottir et al. · 2002 [cited by applicant]
US 6492346B1 · Hedgpeth et al. · 2002 [cited by applicant]
US 6521409B1 · Gocke et al. · 2003 [cited by applicant]
US 6524456B1 · Ramsey et al. · 2003 [cited by applicant]
US 6565727B1 · Shenderov · 2003 [cited by applicant]
US 6582919B2 · Danenberg · 2003 [cited by applicant]
US 6586177B1 · Shuber · 2003 [cited by applicant]
US 6759217B2 · Kopreski et al. · 2004 [cited by applicant]
US 6773566B2 · Shenderov · 2004 [cited by applicant]
US 6812018B2 · Wicher et al. · 2004 [cited by applicant]
US 6818425B2 · Hjorleifsdottir et al. · 2004 [cited by applicant]
US 6849403B1 · Shuber · 2005 [cited by applicant]
US 6858394B1 · Chee et al. · 2005 [cited by applicant]
US 6911132B2 · Pamula et al. · 2005 [cited by applicant]
US 6949342B2 · Golub et al. · 2005 [cited by applicant]
US 7041481B2 · Anderson et al. · 2006 [cited by applicant]
US 7056673B2 · Kamme et al. · 2006 [cited by applicant]
US 7105293B2 · Ramaswamy et al. · 2006 [cited by applicant]
US 7115400B1 · Adessi et al. · 2006 [cited by applicant]
US 7129040B2 · Steck et al. · 2006 [cited by applicant]
US 7138226B2 · Vincek et al. · 2006 [cited by applicant]
US 7141377B2 · Gelfand et al. · 2006 [cited by applicant]
US 7153658B2 · Andersen et al. · 2006 [cited by applicant]
US 7208275B2 · Gocke et al. · 2007 [cited by applicant]
US 7211390B2 · Rothberg et al. · 2007 [cited by applicant]
US 7217795B2 · Steck et al. · 2007 [cited by applicant]
US 7223833B1 · Nielsen et al. · 2007 [cited by applicant]
US 7232653B1 · Austrup et al. · 2007 [cited by applicant]
US 7232656B2 · Balasubramanian et al. · 2007 [cited by applicant]
US 7244559B2 · Rothberg et al. · 2007 [cited by applicant]
US 7264929B2 · Rothberg et al. · 2007 [cited by applicant]
US 7268167B2 · Higuchi et al. · 2007 [cited by applicant]
US 7294468B2 · Bell et al. · 2007 [cited by applicant]
US 7303901B2 · Hjorleifsdottir et al. · 2007 [cited by applicant]
US 7323305B2 · Leamon et al. · 2008 [cited by applicant]
US 7324926B2 · Tamayo et al. · 2008 [cited by applicant]
US 7329495B2 · Chen et al. · 2008 [cited by applicant]
US 7332288B2 · Terstappen et al. · 2008 [cited by applicant]
US 7375140B2 · Higuchi et al. · 2008 [cited by applicant]
US 7381818B2 · Lokhov et al. · 2008 [cited by applicant]
US 7410764B2 · Gocke et al. · 2008 [cited by applicant]
US 7442507B2 · Polsky et al. · 2008 [cited by applicant]
US 7445900B2 · Gelfand et al. · 2008 [cited by applicant]
US 7485442B2 · Afonina et al. · 2009 [cited by applicant]
US 7582739B2 · Lukhtanov et al. · 2009 [cited by applicant]
US 7601821B2 · Andersen et al. · 2009 [cited by applicant]
US 7622281B2 · Ronaghi et al. · 2009 [cited by applicant]
US 7638276B2 · Griffiths et al. · 2009 [cited by applicant]
US 7662553B2 · Lenz et al. · 2010 [cited by applicant]
US 7666593B2 · Lapidus · 2010 [cited by applicant]
US 7700283B2 · Evans et al. · 2010 [cited by applicant]
US 7700286B2 · Stroun et al. · 2010 [cited by applicant]
US 7700323B2 · Willis et al. · 2010 [cited by applicant]
US 7717615B2 · Higuchi et al. · 2010 [cited by applicant]
US 7732576B2 · Steck et al. · 2010 [cited by applicant]
US 7745128B2 · Guo et al. · 2010 [cited by applicant]
US 7772287B2 · Higuchi et al. · 2010 [cited by applicant]
US RE41780E · Anderson et al. · 2010 [cited by applicant]
US 7842248B2 · Mcavoy et al. · 2010 [cited by applicant]
US 7908091B2 · Harvey et al. · 2011 [cited by applicant]
US 7932026B2 · Seshagiri · 2011 [cited by applicant]
US 7935487B2 · Gocke et al. · 2011 [cited by applicant]
US 7947819B2 · Stratton et al. · 2011 [cited by applicant]
US 7948015B2 · Rothberg et al. · 2011 [cited by applicant]
US 7981618B2 · Yu et al. · 2011 [cited by applicant]
US 7993842B2 · Mckernan et al. · 2011 [cited by applicant]
US 8067159B2 · Brown et al. · 2011 [cited by applicant]
US 8198028B2 · Rigatti et al. · 2012 [cited by applicant]
US 8252539B2 · Quake et al. · 2012 [cited by applicant]
US 8278071B2 · Brown et al. · 2012 [cited by applicant]
US 8349276B2 · Pamula et al. · 2013 [cited by applicant]
US 8349563B2 · Lao et al. · 2013 [cited by applicant]
US 8399192B2 · Rigatti et al. · 2013 [cited by applicant]
US 8583380B2 · Stephan et al. · 2013 [cited by applicant]
US 8834873B2 · Petricoin, III et al. · 2014 [cited by applicant]
US 9090648B2 · Behr et al. · 2015 [cited by applicant]
US 9217167B2 · Heller et al. · 2015 [cited by applicant]
US 9255291B2 · Toloue et al. · 2016 [cited by applicant]
US 9309556B2 · Myllykangas et al. · 2016 [cited by applicant]
US 9340830B2 · Lipson et al. · 2016 [cited by applicant]
US 9650628B2 · Amorese et al. · 2017 [cited by applicant]
US 10072287B2 · Zhou et al. · 2018 [cited by applicant]
US 11965211B2 · Stephan et al. · 2024 [cited by applicant]
US 12018336B2 · Stephan · 2024 [cited by examiner]
US 20010034023A1 · Stanton et al. · 2001 [cited by applicant]
US 20020012921A1 · Stanton · 2002 [cited by applicant]
US 20020048755A1 · Cohen · 2002 [cited by applicant]
US 20020115073A1 · Papadopoulos et al. · 2002 [cited by applicant]
US 20020120409A1 · Cao et al. · 2002 [cited by applicant]
US 20030082543A1 · Su et al. · 2003 [cited by applicant]
US 20030093819A1 · D'Andrea et al. · 2003 [cited by applicant]
US 20030143600A1 · Gocke et al. · 2003 [cited by applicant]
US 20030165940A1 · Traverso et al. · 2003 [cited by applicant]
US 20030211530A1 · Danenberg · 2003 [cited by applicant]
US 20030224385A1 · Pihan · 2003 [cited by applicant]
US 20030224439A1 · Lafferty et al. · 2003 [cited by applicant]
US 20040110193A1 · Castle et al. · 2004 [cited by applicant]
US 20040137539A1 · Bradford · 2004 [cited by applicant]
US 20050019785A1 · Baker et al. · 2005 [cited by applicant]
US 20050021240A1 · Berlin et al. · 2005 [cited by applicant]
US 20050153317A1 · Denise et al. · 2005 [cited by applicant]
US 20050181377A1 · Markovic · 2005 [cited by applicant]
US 20050186584A1 · Stratton et al. · 2005 [cited by applicant]
US 20050191656A1 · Drmanac et al. · 2005 [cited by applicant]
US 20050246314A1 · Eder et al. · 2005 [cited by applicant]
US 20050260646A1 · Baker et al. · 2005 [cited by applicant]
US 20050272083A1 · Seshagiri · 2005 [cited by applicant]
US 20050287543A1 · Yu et al. · 2005 [cited by applicant]
US 20060008824A1 · Ronaghi et al. · 2006 [cited by applicant]
US 20060008834A1 · Margus et al. · 2006 [cited by applicant]
US 20060024721A1 · Pedersen · 2006 [cited by applicant]
US 20060046258A1 · Lapidus et al. · 2006 [cited by applicant]
US 20060068406A1 · Affholter et al. · 2006 [cited by applicant]
US 20060134674A1 · Huang et al. · 2006 [cited by applicant]
US 20060184489A1 · Weiner et al. · 2006 [cited by applicant]
US 20060188909A1 · Willey et al. · 2006 [cited by applicant]
US 20060195269A1 · Yeatman et al. · 2006 [cited by applicant]
US 20060254933A1 · Adachi et al. · 2006 [cited by applicant]
US 20060278241A1 · Ruano · 2006 [cited by applicant]
US 20070042369A1 · Reese et al. · 2007 [cited by applicant]
US 20070054333A1 · Steck et al. · 2007 [cited by applicant]
US 20070065846A1 · Baker et al. · 2007 [cited by applicant]
US 20070071762A1 · Ts'O et al. · 2007 [cited by applicant]
US 20070087394A1 · Siena et al. · 2007 [cited by applicant]
US 20070092902A1 · Di Rienzo et al. · 2007 [cited by applicant]
US 20070117121A1 · Hutchison et al. · 2007 [cited by applicant]
US 20070141067A1 · Markovic · 2007 [cited by applicant]
US 20070253951A1 · Ng et al. · 2007 [cited by applicant]
US 20070254295A1 · Harvey et al. · 2007 [cited by applicant]
US 20070269817A1 · Shapero · 2007 [cited by applicant]
US 20080014146A1 · Von Hoff et al. · 2008 [cited by applicant]
US 20080044813A1 · Jansson et al. · 2008 [cited by applicant]
US 20080065411A1 · Keeling et al. · 2008 [cited by applicant]
US 20080090239A1 · Shoemaker et al. · 2008 [cited by applicant]
US 20080090244A1 · Knapp et al. · 2008 [cited by applicant]
US 20080124721A1 · Fuchs et al. · 2008 [cited by applicant]
US 20080131887A1 · Stephan et al. · 2008 [cited by applicant]
US 20080138805A1 · Condeelis · 2008 [cited by applicant]
US 20080160580A1 · Adessi et al. · 2008 [cited by applicant]
US 20080161420A1 · Shuber · 2008 [cited by applicant]
US 20080176209A1 · Muller et al. · 2008 [cited by applicant]
US 20080177608A1 · Keeling · 2008 [cited by applicant]
US 20080207615A1 · Bell et al. · 2008 [cited by applicant]
US 20080213774A1 · Chen et al. · 2008 [cited by applicant]
US 20080242622A1 · Lowe et al. · 2008 [cited by applicant]
US 20080255243A1 · Petricoin et al. · 2008 [cited by applicant]
US 20080262062A1 · Ossovskaya et al. · 2008 [cited by applicant]
US 20080268449A1 · Hoon · 2008 [cited by applicant]
US 20080286795A1 · Kawashima et al. · 2008 [cited by applicant]
US 20080293055A1 · Freeman et al. · 2008 [cited by applicant]
US 20090002608A1 · Kameyama et al. · 2009 [cited by applicant]
US 20090010508A1 · Inoue et al. · 2009 [cited by applicant]
US 20090026082A1 · Rothberg et al. · 2009 [cited by applicant]
US 20090029377A1 · Lo et al. · 2009 [cited by applicant]
US 20090035777A1 · Kokoris et al. · 2009 [cited by applicant]
US 20090035792A1 · Singh et al. · 2009 [cited by applicant]
US 20090062138A1 · Curry et al. · 2009 [cited by applicant]
US 20090075267A1 · Siena et al. · 2009 [cited by applicant]
US 20090081674A1 · Li et al. · 2009 [cited by applicant]
US 20090105081A1 · Rodesch et al. · 2009 [cited by applicant]
US 20090117573A1 · Fu et al. · 2009 [cited by applicant]
US 20090117621A1 · Boutell et al. · 2009 [cited by applicant]
US 20090124514A1 · Fu et al. · 2009 [cited by applicant]
US 20090138286A1 · Linder et al. · 2009 [cited by applicant]
US 20090181861A1 · Li et al. · 2009 [cited by applicant]
US 20090186065A1 · Tillman et al. · 2009 [cited by applicant]
US 20090202984A1 · Cantor · 2009 [cited by applicant]
US 20090202989A1 · Hillan · 2009 [cited by applicant]
US 20090226925A1 · Grebe et al. · 2009 [cited by applicant]
US 20090226975A1 · Sabot et al. · 2009 [cited by applicant]
US 20090247415A1 · Van Eijk · 2009 [cited by applicant]
US 20090258795A1 · Cowens et al. · 2009 [cited by applicant]
US 20090264298A1 · Lim et al. · 2009 [cited by applicant]
US 20090269344A1 · Siena et al. · 2009 [cited by applicant]
US 20090299645A1 · Colby et al. · 2009 [cited by applicant]
US 20100004253A1 · Aziz et al. · 2010 [cited by applicant]
US 20100029498A1 · Gnirke et al. · 2010 [cited by applicant]
US 20100041048A1 · Diehl et al. · 2010 [cited by applicant]
US 20100069250A1 · White, III et al. · 2010 [cited by applicant]
US 20100074895A1 · Petricoin, III et al. · 2010 [cited by applicant]
US 20100093550A1 · Stuelpnagel et al. · 2010 [cited by applicant]
US 20100129799A1 · Guomundsson et al. · 2010 [cited by applicant]
US 20100129896A1 · Knapp et al. · 2010 [cited by applicant]
US 20100130527A1 · Lehrer et al. · 2010 [cited by applicant]
US 20100137143A1 · Rothberg et al. · 2010 [cited by applicant]
US 20100143932A1 · Lapidus · 2010 [cited by applicant]
US 20100143935A1 · Davis · 2010 [cited by applicant]
US 20100166747A1 · Beltran et al. · 2010 [cited by applicant]
US 20100167954A1 · Earnshaw et al. · 2010 [cited by applicant]
US 20100173294A1 · Langland et al. · 2010 [cited by applicant]
US 20100184099A1 · Pestano et al. · 2010 [cited by applicant]
US 20100184618A1 · Namsaraev et al. · 2010 [cited by applicant]
US 20100196889A1 · Bankaitis-Davis et al. · 2010 [cited by applicant]
US 20100196898A1 · Sugarbaker et al. · 2010 [cited by applicant]
US 20100216153A1 · Lapidus et al. · 2010 [cited by applicant]
US 20100255004A1 · Depinho et al. · 2010 [cited by applicant]
US 20100286143A1 · Dias-Santagata et al. · 2010 [cited by applicant]
US 20100297615A1 · Seshagiri · 2010 [cited by applicant]
US 20100304446A1 · Davies et al. · 2010 [cited by applicant]
US 20100304989A1 · Von Hoff et al. · 2010 [cited by applicant]
US 20110004413A1 · Carnevali et al. · 2011 [cited by applicant]
US 20110053157A1 · Skog et al. · 2011 [cited by applicant]
US 20110091880A1 · Rafnar et al. · 2011 [cited by applicant]
US 20110157322A1 · Bennett et al. · 2011 [cited by applicant]
US 20110159499A1 · Hindson et al. · 2011 [cited by applicant]
US 20110212456A1 · Siena et al. · 2011 [cited by applicant]
US 20110212991A1 · Langland et al. · 2011 [cited by applicant]
US 20110217710A9 · Shapero · 2011 [cited by applicant]
US 20110230360A1 · Stephan et al. · 2011 [cited by applicant]
US 20110244455A1 · Larson et al. · 2011 [cited by applicant]
US 20110275097A9 · Singh et al. · 2011 [cited by applicant]
US 20110299645A1 · Kim et al. · 2011 [cited by applicant]
US 20120003657A1 · Myllykangas et al. · 2012 [cited by applicant]
US 20120028814A1 · Toloue et al. · 2012 [cited by applicant]
US 20120115143A1 · Livak et al. · 2012 [cited by applicant]
US 20120156728A1 · Li et al. · 2012 [cited by applicant]
US 20120157322A1 · Myllykangas et al. · 2012 [cited by applicant]
US 20120208706A1 · Downing et al. · 2012 [cited by applicant]
US 20120264129A1 · Freeman et al. · 2012 [cited by applicant]
US 20130045872A1 · Zhou et al. · 2013 [cited by applicant]
US 20130143276A1 · Zhelkovsky et al. · 2013 [cited by applicant]
US 20130231253A1 · Amorese et al. · 2013 [cited by applicant]
US 20140080733A1 · Stephan et al. · 2014 [cited by applicant]
US 20140141426A1 · Stephan et al. · 2014 [cited by applicant]
US 20140141980A1 · Stephan et al. · 2014 [cited by applicant]
US 20140172319A1 · Von Hoff et al. · 2014 [cited by applicant]
US 20140193860A1 · Bevilacqua et al. · 2014 [cited by applicant]
US 20140287937A1 · So et al. · 2014 [cited by applicant]
US 20140303008A1 · Schutz et al. · 2014 [cited by applicant]
US 20150017635A1 · Myllykangas et al. · 2015 [cited by applicant]
US 20150031086A1 · Heller et al. · 2015 [cited by applicant]
US 20150126377A1 · Gnirke et al. · 2015 [cited by applicant]
US 20150284714A1 · Gormley et al. · 2015 [cited by applicant]
US 20160115553A1 · Stephan et al. · 2016 [cited by applicant]
US 20160115554A1 · Stephan et al. · 2016 [cited by applicant]
US 20160122830A1 · Stephan et al. · 2016 [cited by applicant]
US 20160186267A1 · So et al. · 2016 [cited by applicant]
US 20160222427A1 · So et al. · 2016 [cited by applicant]
US 20160281154A1 · So et al. · 2016 [cited by applicant]
US 20160362749A1 · Stephan et al. · 2016 [cited by applicant]
US 20170101674A1 · So et al. · 2017 [cited by applicant]
US 20180148756A1 · So et al. · 2018 [cited by applicant]
US 20190271044A1 · Stephan et al. · 2019 [cited by applicant]
US 20230357864A1 · Stephan et al. · 2023 [cited by applicant]
US 20230407408A1 · Stephan et al. · 2023 [cited by applicant]
US 20240158868A1 · Stephan et al. · 2024 [cited by applicant]
EP 0799897A1 · 1997 [cited by applicant]
EP 1207209A2 · 2002 [cited by applicant]
EP 1394272B1 · 2006 [cited by applicant]
EP 1546313B1 · 2008 [cited by applicant]
EP 1995330A1 · 2008 [cited by applicant]
EP 1573316B1 · 2009 [cited by applicant]
EP 0972024B1 · 2011 [cited by applicant]
EP 2318552A2 · 2011 [cited by applicant]
EP 1591541B1 · 2012 [cited by applicant]
EP 2481815A1 · 2012 [cited by applicant]
EP 2396430B1 · 2013 [cited by applicant]
EP 2610352B1 · 2014 [cited by applicant]
EP 2376659B1 · 2015 [cited by applicant]
JP 2002503954A · 2002 [cited by applicant]
JP 2003501071A · 2003 [cited by applicant]
JP 2010041985A · 2010 [cited by applicant]
WO WO9015065A1 · 1990 [cited by applicant]
WO WO9322456A1 · 1993 [cited by applicant]
WO WO9914226A2 · 1999 [cited by applicant]
WO WO0175160A1 · 2001 [cited by applicant]
WO WO2004062483A2 · 2004 [cited by applicant]
WO WO2004111603A2 · 2004 [cited by applicant]
WO WO2005049849A2 · 2005 [cited by applicant]
WO WO2004111603A3 · 2005 [cited by applicant]
WO WO2005085473A2 · 2005 [cited by applicant]
WO WO2005094357A2 · 2005 [cited by applicant]
WO WO2005108583A1 · 2005 [cited by applicant]
WO WO2006012361A2 · 2006 [cited by applicant]
WO WO2005085473A3 · 2006 [cited by applicant]
WO WO2006047787A2 · 2006 [cited by applicant]
WO WO2004062483A3 · 2006 [cited by applicant]
WO WO2006108627A1 · 2006 [cited by applicant]
WO WO2006128463A2 · 2006 [cited by applicant]
WO WO2006128463A3 · 2007 [cited by applicant]
WO WO2007038792A2 · 2007 [cited by applicant]
WO WO2007050465A2 · 2007 [cited by applicant]
WO WO2007091228A1 · 2007 [cited by applicant]
WO WO2007091230A1 · 2007 [cited by applicant]
WO WO2007100243A1 · 2007 [cited by applicant]
WO WO2007106432A2 · 2007 [cited by applicant]
WO WO2007050465A3 · 2007 [cited by applicant]
WO WO2007038792A3 · 2007 [cited by applicant]
WO WO2008038259A1 · 2008 [cited by applicant]
WO WO2008076406A2 · 2008 [cited by applicant]
WO WO2005094357A3 · 2008 [cited by applicant]
WO WO2008147879A1 · 2008 [cited by applicant]
WO WO2008157220A1 · 2008 [cited by applicant]
WO WO2009004335A1 · 2009 [cited by applicant]
WO WO2009038853A2 · 2009 [cited by applicant]
WO WO2009046445A1 · 2009 [cited by applicant]
WO WO2009102957A2 · 2009 [cited by applicant]
WO WO2009108637A1 · 2009 [cited by applicant]
WO WO2009114836A1 · 2009 [cited by applicant]
WO WO2010028288A2 · 2010 [cited by applicant]
WO WO2010036352A1 · 2010 [cited by applicant]
WO WO2010045318A2 · 2010 [cited by applicant]
WO WO2010045318A3 · 2010 [cited by applicant]
WO WO2010094040A1 · 2010 [cited by applicant]
WO WO2011025477A1 · 2011 [cited by applicant]
WO WO2011106314A2 · 2011 [cited by applicant]
WO WO2011140510A2 · 2011 [cited by applicant]
WO WO2012018638A2 · 2012 [cited by applicant]
WO WO2012103154A1 · 2012 [cited by applicant]
WO WO2012142213A2 · 2012 [cited by applicant]
WO WO2013036810A1 · 2013 [cited by applicant]
WO WO2013066641A1 · 2013 [cited by applicant]
WO WO2013112923A1 · 2013 [cited by applicant]
WO WO2013113012A2 · 2013 [cited by applicant]
WO WO2013119690A1 · 2013 [cited by applicant]
WO WO2013173472A1 · 2013 [cited by applicant]
WO WO2013190441A2 · 2013 [cited by applicant]
WO WO2014130890A1 · 2014 [cited by applicant]
WO WO2015089333A1 · 2015 [cited by applicant]
WO WO2017139492A1 · 2017 [cited by applicant]
Minoo et al., “Role of BRAF-V600E in the serrated pathway of colorectal tumourigenesis” 212 Journal of Pathology 124-133 (Year: 2007). [cited by examiner]
Karakas et al., “Mutation of the PIK3CA oncogene in human cancers” 94 British Journal of Cancer 455-459 (Year: 2006). [cited by examiner]
Martínez-López et al., “Allelic Loss on Chromosome 18q as a Prognistic Marker in Stage II Colorectal Cancer” 114 Gastroenterology 1180-1187 (Year: 1998). [cited by examiner]
Co-pending U.S. Appl. No. 18/418,774, inventors Stephan; Dietrich et al., filed Jan. 22, 2024. [cited by applicant]
Gryfe, Robert et al. Tumor Microsatellite Instability and Clinical Outcome in Young Patients With Colorectal Cancer. The New England Journal of Medicine vol. 342,2: pp. 69-77 (2000). [cited by applicant]
Hirsch, F R et al. Combination of EGFR Gene Copy Number and Protein Expression Predicts Outcome for Advanced Non Small Cell Lung Cancer Patients Treated With Gefitnib. Annals of Oncology : Official Journal of the Europe… [cited by applicant]
Krypuy, Michael et al. High Resolution Melting Analysis for the Rapid and Sensitive Detection of Mutations in Clinical Samples: KRAS Codon 12 and 13 Mutations in Non-small Cell Lung Cancer. BMC Cancer vol. 6: 295, pp. 1… [cited by applicant]
Longley, B J et al. Classes of c-KIT Activating Mutations: Proposed Mechanisms of Action and Implications for Disease Classification and Therapy. Leukemia Research vol. 25,7: pp. 571-576 (2001). [cited by applicant]
Samowitz, Wade s et al. Poor Survival Associated with the Braf V600E Mutation in Microsatellite-Stable Colon Cancers. Cancer Research vol. 65,14: pp. 6063-6070 (2006). [cited by applicant]
U.S. Appl. No. 16/154,307 Notice of Allowance dated Mar. 20, 2024. [cited by applicant]
U.S. Appl. No. 16/154,307 Office Action dated Aug. 20, 2021. [cited by applicant]
U.S. Appl. No. 18/356,900 Notice of Allowance dated Mar. 20, 2024. [cited by applicant]
U.S. Appl. No. 18/356,900 Office Action dated Oct. 10, 2023. [cited by applicant]
U.S. Appl. No. 18/356,906 Office Action dated Jan. 29, 2024. [cited by applicant]
U.S. Appl. No. 18/356,906 Office Action dated May 10, 2024. [cited by applicant]
U.S. Appl. No. 16/154,307 Notice of Allowance dated Jan. 5, 2024. [cited by applicant]
U.S. Appl. No. 16/154,307 Office Action dated Dec. 7, 2021. [cited by applicant]
U.S. Appl. No. 16/154,307 Office Action dated Feb. 24, 2023. [cited by applicant]
U.S. Appl. No. 16/154,307 Office Action dated Jul. 20, 2022. [cited by applicant]
U.S. Appl. No. 16/154,307 Office Action dated Sep. 26, 2023. [cited by applicant]
Agrawal, et al. Tetrahedron Letters. 1990; vol. 31: 1543-1546. [cited by applicant]
Alazzouzi, et al. SMAD4 as a prognostic marker in colorectal cancer. Clin Cancer Res. Apr. 1, 2005;11(7):2606-11. [cited by applicant]
Albert, et al. Direct selection of human genomic loci by microarray hybridization. Nature Methods (2007), 4 (11):903-5. [cited by applicant]
Alizadeh, et al. Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature. Feb. 3, 2000;403(6769):503-11. [cited by applicant]
Altschul et al.: Basic Local Alignment Search Tool. J Mol Biol 215(3):403-410 (1990). [cited by applicant]
Anker, et al. K-ras mutations are found in DNA extracted from the plasma of patients with colorectal cancer. Gastroenterology. Apr. 1997; 112(4):1114-20. [cited by applicant]
Applied Biosystems: Designing TaqMan® MGB Probe and Primer Sets for Allelic Discrimination Assays Using Primer Express® Software Version 2.0 (2002). [cited by applicant]
Arber, et al. Celecoxib for the prevention of colorectal adenomatous polyps. N Engl J Med. Aug. 31, 2006;355(9):885-95. [cited by applicant]
Aureon Laboratories. Available at http://www.aureon.com. Accessed Feb. 5, 2009. [cited by applicant]
Bashiardes, et al. Direct genomic selection. Nat Methods. Jan. 2005;2(1):63-9. [cited by applicant]
Cited By (1)
US 12,467,099