IP Library › Granted Patent US 12,209,275
Granted Patent B2
US 12,209,275 · App. 17/699,849 · Granted Jan 28, 2025

Chemical compositions and methods of using same

Inventors: Dwayne L. Dunaway (Seattle, WA); Elizabeth A. Manrao (Lake Forest Park, WA); Joseph M. Beechem (Eugene, OR); Rustem Khafizov (Seattle, WA); Sanghamithra Korukonda (Seattle, WA); Yi Deng (Seattle, WA); Dae Kim (Bellevue, WA); Mark Gregory (Boise, ID); Margaret Hoang (Seattle, WA)
Assignee: Bruker Spatial Biology, Inc.
C12Q1/6825C12Q1/6869C12Q1/6874
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Quick Facts
Patent No.
US 12,209,275
App. No.
17/699,849
Granted
Jan 28, 2025
Kind
B2
Abstract

The present disclosure relates to chemical compositions, kits, and apparatuses and methods for using these compositions, kits and apparatuses in various assays.

Claims (50)

1. A method of detecting a target analyte in a sample comprising:

(a) contacting the sample with a probe under conditions such that the probe directly or indirectly binds to the target analyte;

wherein the probe comprises a primary nucleic acid molecule hybridized to at least six secondary nucleic acid molecules,

wherein the primary nucleic acid molecule comprises a first domain and a second domain, wherein the at least six secondary nucleic acid molecules are hybridized to the second domain of the primary nucleic acid molecule,

wherein the primary nucleic acid molecule comprises at least one photocleavable linker located between the first domain and the second domain,

wherein each of the secondary nucleic acid molecules is hybridized to at least five tertiary nucleic acid molecules,

wherein each secondary nucleic acid molecule comprises a first domain and a second domain, wherein the first domain is hybridized to the primary nucleic acid molecule and the second domain is hybridized to the at least five tertiary nucleic acid molecules,

wherein each of the secondary nucleic acid molecules comprises at least one photocleavable linker located between its first domain and second domain,

wherein each of the tertiary nucleic acid molecules comprises at least one detectable label such that the probe comprises at least 30 detectable labels; and

(b) detecting the detectable labels of the probe, thereby detecting the target analyte in the sample.

2. The method of claim 1 , wherein the first domain of the primary nucleic acid comprises about 14 nucleotides.

3. The method of claim 2 , wherein the primary nucleic acid comprises about 80 to about 100 nucleotides.

4. The method of claim 1 , wherein each secondary nucleic acid molecule comprises about 80 to about 90 nucleotides.

5. The method of claim 1 , wherein each tertiary nucleic acid molecule comprises about 10 to about 20 nucleotides.

6. The method of claim 5 , wherein each tertiary nucleic acid molecule comprises about 15 nucleotides.

7. The method of claim 1 , wherein all of the at least 30 detectable labels have the same emission spectra.

8. The method of claim 1 , wherein at least one of the at least 30 detectable labels has a first emission spectrum and at least one of the at least 30 detectable labels has a second emission spectrum, wherein the first emission spectrum and the second emission spectrum are spectrally resolvable.

9. The method of claim 1 , wherein at least one detectable label is a fluorescent label.

10. The method of claim 1 , wherein the primary nucleic acid molecule is hybridized to only six secondary nucleic acid molecules, and

wherein each of the secondary nucleic acid molecules is hybridized to only five tertiary nucleic acid molecules.

11. A method of detecting a target analyte in a sample comprising:

(a) contacting the sample with a first probe under conditions such that the first probe directly or indirectly binds to the target analyte,

wherein the first probe comprises a primary nucleic acid molecule hybridized to at least six secondary nucleic acid molecules,

wherein the primary nucleic acid molecule comprises a first domain and a second domain, wherein the at least six secondary nucleic acid molecules are hybridized to the second domain of the primary nucleic acid molecule,

wherein the primary nucleic acid molecule comprises at least one photocleavable linker located between the first domain and the second domain,

wherein each of the secondary nucleic acid molecules is hybridized to at least five tertiary nucleic acid molecules,

wherein each secondary nucleic acid molecule comprises a first domain and a second domain, wherein the first domain is hybridized to the primary nucleic acid molecule and the second domain is hybridized to the at least five tertiary nucleic acid molecules,

wherein each of the secondary nucleic acid molecules comprise at least one photocleavable linker located between its first domain and second domain,

wherein each of the tertiary nucleic acid molecules comprises at least one detectable label such that the probe comprises at least 30 detectable labels;

(b) detecting the detectable labels of the first probe;

(c) removing the detectable labels of the first probe;

(d) contacting the sample with an at least second probe under conditions such that the probe directly or indirectly binds to the target analyte,

wherein the second probe comprises a primary nucleic acid molecule hybridized to at least six secondary nucleic acid molecules,

wherein the primary nucleic acid molecule comprises a first domain and a second domain, wherein the at least six secondary nucleic acid molecules are hybridized to the second domain of the primary nucleic acid molecule,

wherein the primary nucleic acid molecule comprises at least one photocleavable linker located between the first domain and the second domain,

wherein each of the secondary nucleic acid molecules is hybridized to at least five tertiary nucleic acid molecules,

wherein each secondary nucleic acid molecule comprises a first domain and a second domain, wherein the first domain is hybridized to the primary nucleic acid molecule and the second domain is hybridized to the at least five tertiary nucleic acid molecules,

wherein each of the secondary nucleic acid molecules comprises at least one photocleavable linker located between its first domain and second domain,

wherein each of the tertiary nucleic acid molecules comprises at least one detectable label such that the probe comprises at least 30 detectable labels; and

(e) detecting the detectable labels of the at least one second probe, thereby detecting the target analyte in the sample.

12. The method of claim 11 , wherein the first domain of the primary nucleic acid comprises about 14 nucleotides.

13. The method of claim 12 , wherein the primary nucleic acid comprises about 80 to about 100 nucleotides.

14. The method of claim 11 , wherein each secondary nucleic acid molecule comprises about 80 to about 90 nucleotides.

15. The method of claim 11 , wherein each tertiary nucleic acid molecule comprises about 10 to about 20 nucleotides.

16. The method of claim 15 , wherein each tertiary nucleic acid molecule comprises about 15 nucleotides.

17. The method of claim 11 , wherein all of the at least 30 detectable labels have the same emission spectra.

18. The method of claim 11 , wherein at least one of the at least 30 detectable labels has a first emission spectrum and at least one of the at least 30 detectable labels has a second emission spectrum, wherein the first emission spectrum and the second emission spectrum are spectrally resolvable.

19. The method of claim 11 , wherein at least one detectable label is a fluorescent label.

20. The method of claim 11 , wherein the primary nucleic acid molecule is hybridized to only six secondary nucleic acid molecules, and

wherein each of the secondary nucleic acid molecules is hybridized to only five tertiary nucleic acid molecules.

Assignments (7)
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded May 30, 2024
From: NANOSTRING TECHNOLOGIES, INC.
To: BRUKER SPATIAL BIOLOGY, INC.
Reel/Frame 067572/0391 →
RELEASE OF SECURITY INTEREST Recorded May 16, 2024
From: U.S. BANK TRUST COMPANY, NATIONAL ASSOCIATION
To: NANOSTRING TECHNOLOGIES, INC.
Reel/Frame 067453/0565 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded May 16, 2024
From: NANOSTRING TECHNOLOGIES, INC.
To: BRUKER SPATIAL BIOLOGY, INC.
Reel/Frame 067932/0109 →
RELEASE OF SECURITY INTEREST Recorded May 16, 2024
From: WILMINGTON TRUST, NATIONAL ASSOCIATION
To: NANOSTRING TECHNOLOGIES, INC.
Reel/Frame 067453/0577 →
SECURITY INTEREST Recorded Feb 8, 2024
From: NANOSTRING TECHNOLOGIES, INC.
To: WILMINGTON TRUST, NATIONAL ASSOCIATION
Reel/Frame 066528/0634 →
SECURITY INTEREST Recorded Nov 7, 2023
From: NANOSTRING TECHNOLOGIES, INC.
To: U.S. BANK TRUST COMPANY, NATIONAL ASSOCIATION
Reel/Frame 065490/0058 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 24, 2022
From: DUNAWAY, DWAYNE L.; MANRAO, ELIZABETH A.; BEECHEM, JOSEPH M.; KHAFIZOV, RUSTEM; KORUKONDA, SANGHAMITHRA; DENG, YI; KIM, DAE; GREGORY, MARK; HOANG, MARGARET
To: NANOSTRING TECHNOLOGIES, INC.
Reel/Frame 059385/0201 →
Continuity (6)
Division 16559755 · Sep 4, 2019
Continuation 15819151 · Nov 21, 2017
Provisional Application 62536147 · Jul 24, 2017
Provisional Application 62457237 · Feb 10, 2017
Provisional Application 62424887 · Nov 21, 2016
Related Publication 20220213532A1 · Jul 7, 2022
References Cited (400)
US 5320814A · Walt et al. · 1994 [cited by applicant]
US 5432272A · Benner et al. · 1995 [cited by applicant]
US 5543838A · Hosier et al. · 1996 [cited by applicant]
US 5635352A · Urdea et al. · 1997 [cited by applicant]
US 5665540A · Lebo · 1997 [cited by applicant]
US 5681697A · Urdea et al. · 1997 [cited by applicant]
US 5710264A · Urdea et al. · 1998 [cited by applicant]
US 5763167A · Conrad · 1998 [cited by applicant]
US 5776688A · Bittner et al. · 1998 [cited by applicant]
US 5780227A · Sheridan et al. · 1998 [cited by applicant]
US 5783387A · Lucas et al. · 1998 [cited by applicant]
US 5853993A · Dellinger et al. · 1998 [cited by applicant]
US 5871928A · Fodor · 1999 [cited by applicant]
US 5888778A · Shuber · 1999 [cited by applicant]
US 5945515A · Chomczynski · 1999 [cited by applicant]
US 5981180A · Chandler · 1999 [cited by applicant]
US 5985549A · Singer · 1999 [cited by applicant]
US 6037120A · Benner · 2000 [cited by applicant]
US 6140496A · Benner · 2000 [cited by applicant]
US 6207392B1 · Weiss et al. · 2001 [cited by applicant]
US 6225285B1 · Luo · 2001 [cited by applicant]
US 6238869B1 · Kris · 2001 [cited by applicant]
US 6242184B1 · Singer · 2001 [cited by applicant]
US 6277569B1 · Bittner et al. · 2001 [cited by applicant]
US 6306643B1 · Gentalen et al. · 2001 [cited by applicant]
US 6316200B1 · Nadeau et al. · 2001 [cited by applicant]
US 6365362B1 · Terstappen et al. · 2002 [cited by applicant]
US 6368800B1 · Smith et al. · 2002 [cited by applicant]
US 6379888B1 · Nadeau et al. · 2002 [cited by applicant]
US 6428957B1 · Delenstarr · 2002 [cited by applicant]
US 6429027B1 · Chee et al. · 2002 [cited by applicant]
US 6440667B1 · Fodor et al. · 2002 [cited by applicant]
US 6449562B1 · Chandler et al. · 2002 [cited by applicant]
US 6506563B1 · Ward et al. · 2003 [cited by applicant]
US 6511824B1 · Buchman et al. · 2003 [cited by applicant]
US 6534266B1 · Beall et al. · 2003 [cited by applicant]
US 6548259B2 · Ward et al. · 2003 [cited by applicant]
US 6569626B2 · Bittner et al. · 2003 [cited by applicant]
US 6610475B1 · Kacian et al. · 2003 [cited by applicant]
US 6673914B1 · Hoon et al. · 2004 [cited by applicant]
US 6727356B1 · Reed et al. · 2004 [cited by applicant]
US 6750016B2 · Mirkin et al. · 2004 [cited by applicant]
US 6803200B2 · Xia et al. · 2004 [cited by applicant]
US 6942968B1 · Dickinson et al. · 2005 [cited by applicant]
US 7033754B2 · Chee et al. · 2006 [cited by applicant]
US 7033758B2 · Kenny et al. · 2006 [cited by applicant]
US 7052841B2 · Delenstarr · 2006 [cited by applicant]
US 7064197B1 · Rabbani et al. · 2006 [cited by applicant]
US 7250371B2 · Kang et al. · 2007 [cited by applicant]
US 7255999B2 · Singh et al. · 2007 [cited by applicant]
US 7285384B2 · Fan et al. · 2007 [cited by applicant]
US 7385043B1 · Kramer · 2008 [cited by applicant]
US 7462475B2 · Kermekchiev et al. · 2008 [cited by applicant]
US 7473767B2 · Dimitrov · 2009 [cited by applicant]
US 7524631B2 · Patterson · 2009 [cited by applicant]
US 7582415B2 · Straus · 2009 [cited by applicant]
US 7608396B2 · Delenstarr et al. · 2009 [cited by applicant]
US 7615351B2 · McMaster et al. · 2009 [cited by applicant]
US 7709198B2 · Luo et al. · 2010 [cited by applicant]
US 7741046B2 · Larsen et al. · 2010 [cited by applicant]
US 7745129B1 · Schatz · 2010 [cited by applicant]
US 7763421B2 · Farrell · 2010 [cited by applicant]
US 7771949B2 · Kramer · 2010 [cited by applicant]
US 7803541B2 · Luo et al. · 2010 [cited by applicant]
US 7807352B2 · Rabbani et al. · 2010 [cited by applicant]
US 7829278B2 · Selvin et al. · 2010 [cited by applicant]
US 7863012B2 · Rao et al. · 2011 [cited by applicant]
US 7906072B2 · Unger et al. · 2011 [cited by applicant]
US 7919237B2 · Dimitrov et al. · 2011 [cited by applicant]
US 7927798B2 · Zheng et al. · 2011 [cited by applicant]
US 7941279B2 · Hwang et al. · 2011 [cited by applicant]
US 7951539B2 · McMaster et al. · 2011 [cited by applicant]
US 7955794B2 · Shen et al. · 2011 [cited by applicant]
US 7968327B2 · McMaster et al. · 2011 [cited by applicant]
US 8017360B2 · Luo et al. · 2011 [cited by applicant]
US 8048378B2 · Unger et al. · 2011 [cited by applicant]
US 8049893B2 · Moon et al. · 2011 [cited by applicant]
US 8055034B2 · Dube et al. · 2011 [cited by applicant]
US 8063196B2 · Zheng et al. · 2011 [cited by applicant]
US 8114681B2 · Martin et al. · 2012 [cited by applicant]
US 8148075B2 · Farrell et al. · 2012 [cited by applicant]
US 8148512B2 · Dimitrov · 2012 [cited by applicant]
US 8173785B2 · Stender et al. · 2012 [cited by applicant]
US 8288522B2 · Luo et al. · 2012 [cited by applicant]
US 8309306B2 · Nolan et al. · 2012 [cited by applicant]
US 8394944B2 · Zheng et al. · 2013 [cited by applicant]
US 8404444B2 · Zhang et al. · 2013 [cited by applicant]
US 8405970B2 · Sun · 2013 [cited by applicant]
US 8415102B2 · Geiss et al. · 2013 [cited by applicant]
US 8492094B2 · Dimitrov et al. · 2013 [cited by applicant]
US 8501459B2 · Chen et al. · 2013 [cited by applicant]
US 8501490B2 · Chen et al. · 2013 [cited by applicant]
US 8519115B2 · Webster et al. · 2013 [cited by applicant]
US 8604182B2 · Luo et al. · 2013 [cited by applicant]
US 8628918B2 · Luo et al. · 2014 [cited by applicant]
US 8658361B2 · Wu et al. · 2014 [cited by applicant]
US 8685646B2 · Battersby et al. · 2014 [cited by applicant]
US 8715926B2 · Duerksen-Hughes et al. · 2014 [cited by applicant]
US 8741566B2 · Winther et al. · 2014 [cited by applicant]
US 8790878B2 · Hayes · 2014 [cited by applicant]
US 8865404B2 · Wu et al. · 2014 [cited by applicant]
US 8951726B2 · Luo et al. · 2015 [cited by applicant]
US 9046477B2 · Emedcoles et al. · 2015 [cited by applicant]
US 9096902B2 · Heinz-Ulrich · 2015 [cited by applicant]
US 9150910B2 · Hu et al. · 2015 [cited by applicant]
US 9228948B2 · Emedcoles et al. · 2016 [cited by applicant]
US 9297762B2 · Emedcoles et al. · 2016 [cited by applicant]
US 9304084B2 · Emedcoles et al. · 2016 [cited by applicant]
US 9315854B2 · Wu et al. · 2016 [cited by applicant]
US 10138509B2 · Church et al. · 2018 [cited by applicant]
US 10227639B2 · Levner et al. · 2019 [cited by applicant]
US 10415080B2 · Dunaway · 2019 [cited by examiner]
US 10457980B2 · Cai et al. · 2019 [cited by applicant]
US 10597719B2 · Kuwahara · 2020 [cited by applicant]
US 10844426B2 · Daugharthy et al. · 2020 [cited by applicant]
US 11021737B2 · Church et al. · 2021 [cited by applicant]
US 11098303B2 · Zhuang et al. · 2021 [cited by applicant]
US 11111521B2 · Church et al. · 2021 [cited by applicant]
US 11118220B2 · Daugharthy et al. · 2021 [cited by applicant]
US 11193163B2 · Daugharthy et al. · 2021 [cited by applicant]
US 11279969B2 · Dunaway et al. · 2022 [cited by applicant]
US 11293054B2 · Levner et al. · 2022 [cited by applicant]
US 11542554B2 · Daugharthy et al. · 2023 [cited by applicant]
US 11549139B2 · Dunaway et al. · 2023 [cited by applicant]
US 11821026B2 · Dunaway et al. · 2023 [cited by applicant]
US 12049666B2 · Dunaway · 2024 [cited by applicant]
US 20010002315A1 · Schultz et al. · 2001 [cited by applicant]
US 20010007775A1 · Seul et al. · 2001 [cited by applicant]
US 20010023078A1 · Bawendi et al. · 2001 [cited by applicant]
US 20010029049A1 · Walt et al. · 2001 [cited by applicant]
US 20010034034A1 · Bruchez et al. · 2001 [cited by applicant]
US 20010053334A1 · Chen et al. · 2001 [cited by applicant]
US 20020028457A1 · Empedocles et al. · 2002 [cited by applicant]
US 20020034737A1 · Drmanac · 2002 [cited by applicant]
US 20020034827A1 · Singh et al. · 2002 [cited by applicant]
US 20020039728A1 · Kain et al. · 2002 [cited by applicant]
US 20020051971A1 · Stuelpnagel et al. · 2002 [cited by applicant]
US 20020068018A1 · Pepper et al. · 2002 [cited by applicant]
US 20020102574A1 · Nadeau et al. · 2002 [cited by applicant]
US 20020177141A1 · Chee et al. · 2002 [cited by applicant]
US 20020187515A1 · Chee et al. · 2002 [cited by applicant]
US 20030008323A1 · Ravkin et al. · 2003 [cited by applicant]
US 20030028981A1 · Chandler et al. · 2003 [cited by applicant]
US 20030148335A1 · Li et al. · 2003 [cited by applicant]
US 20030186426A1 · Brewer et al. · 2003 [cited by applicant]
US 20040248144A1 · Mir · 2004 [cited by applicant]
US 20050037397A1 · Mirkin et al. · 2005 [cited by applicant]
US 20050048498A1 · Woudenberg et al. · 2005 [cited by applicant]
US 20050064435A1 · Su et al. · 2005 [cited by applicant]
US 20050131006A1 · Mukherjee et al. · 2005 [cited by applicant]
US 20050147981A1 · Yamakawa et al. · 2005 [cited by applicant]
US 20050170439A1 · Chan-Hui et al. · 2005 [cited by applicant]
US 20050233318A1 · Chee et al. · 2005 [cited by applicant]
US 20050239084A1 · Nadeau et al. · 2005 [cited by applicant]
US 20060014191A1 · Lao et al. · 2006 [cited by applicant]
US 20060063196A1 · Akeson et al. · 2006 [cited by applicant]
US 20060088872A1 · Ahmadian et al. · 2006 [cited by applicant]
US 20060134917A1 · Huang et al. · 2006 [cited by applicant]
US 20060210982A1 · Yanagawa et al. · 2006 [cited by applicant]
US 20070048759A1 · Luo et al. · 2007 [cited by applicant]
US 20070117109A1 · Rothemund · 2007 [cited by applicant]
US 20070148690A1 · Shao et al. · 2007 [cited by applicant]
US 20070154889A1 · Wang · 2007 [cited by applicant]
US 20080085509A1 · Knoll et al. · 2008 [cited by applicant]
US 20080108073A1 · Nautiyal et al. · 2008 [cited by applicant]
US 20090220978A1 · Dimitrov · 2009 [cited by applicant]
US 20090246879A1 · Drmanac · 2009 [cited by applicant]
US 20090299640A1 · Ellis et al. · 2009 [cited by applicant]
US 20090318298A1 · Kim et al. · 2009 [cited by applicant]
US 20100015607A1 · Geiss et al. · 2010 [cited by applicant]
US 20100047924A1 · Webster et al. · 2010 [cited by applicant]
US 20100151472A1 · Nolan et al. · 2010 [cited by applicant]
US 20100261026A1 · Ferree et al. · 2010 [cited by applicant]
US 20100268478A1 · Andregg et al. · 2010 [cited by applicant]
US 20110021369A1 · Mhlanga et al. · 2011 [cited by applicant]
US 20110086774A1 · Dunaway · 2011 [cited by applicant]
US 20110145176A1 · Perou et al. · 2011 [cited by applicant]
US 20110195864A1 · Ma et al. · 2011 [cited by applicant]
US 20110201515A1 · Webster et al. · 2011 [cited by applicant]
US 20110229888A1 · Hengen et al. · 2011 [cited by applicant]
US 20120003648A1 · Ma et al. · 2012 [cited by applicant]
US 20120004132A1 · Zhang et al. · 2012 [cited by applicant]
US 20120052498A1 · Nguyen et al. · 2012 [cited by applicant]
US 20120071343A1 · Ma et al. · 2012 [cited by applicant]
US 20120100540A1 · Wu et al. · 2012 [cited by applicant]
US 20120122712A1 · Goldstein · 2012 [cited by applicant]
US 20120172246A1 · Nguyen et al. · 2012 [cited by applicant]
US 20120178081A1 · Nguyen et al. · 2012 [cited by applicant]
US 20120214152A1 · Ma et al. · 2012 [cited by applicant]
US 20120295801A1 · Wu et al. · 2012 [cited by applicant]
US 20120301886A1 · Farrell et al. · 2012 [cited by applicant]
US 20120316082A1 · Pregibon et al. · 2012 [cited by applicant]
US 20130004482A1 · Perou et al. · 2013 [cited by applicant]
US 20130017971A1 · Geiss et al. · 2013 [cited by applicant]
US 20130023433A1 · Luo et al. · 2013 [cited by applicant]
US 20130065780A1 · He et al. · 2013 [cited by applicant]
US 20130171621A1 · Luo et al. · 2013 [cited by applicant]
US 20130178372A1 · Geiss et al. · 2013 [cited by applicant]
US 20130203055A1 · Aurich-Costa · 2013 [cited by applicant]
US 20130230851A1 · Geiss et al. · 2013 [cited by applicant]
US 20130237437A1 · Russell et al. · 2013 [cited by applicant]
US 20130274117A1 · Church et al. · 2013 [cited by applicant]
US 20130337444A1 · Ferree et al. · 2013 [cited by applicant]
US 20130345161A1 · Perou et al. · 2013 [cited by applicant]
US 20140005067A1 · Webster et al. · 2014 [cited by applicant]
US 20140017688A1 · Webster et al. · 2014 [cited by applicant]
US 20140030698A1 · Wang · 2014 [cited by applicant]
US 20140037620A1 · Ferree et al. · 2014 [cited by applicant]
US 20140087959A1 · Ellis et al. · 2014 [cited by applicant]
US 20140120083A1 · Stern et al. · 2014 [cited by applicant]
US 20140154681A1 · Wallden · 2014 [cited by applicant]
US 20140162251A1 · Dimitrov · 2014 [cited by applicant]
US 20140178869A1 · Ma et al. · 2014 [cited by applicant]
US 20140227706A1 · Kato et al. · 2014 [cited by applicant]
US 20140248611A1 · Ichikawa et al. · 2014 [cited by applicant]
US 20140249040A1 · Wu et al. · 2014 [cited by applicant]
US 20140302042A1 · Chin et al. · 2014 [cited by applicant]
US 20140349294A1 · Church et al. · 2014 [cited by applicant]
US 20140357509A1 · Ma et al. · 2014 [cited by applicant]
US 20140357660A1 · Mock et al. · 2014 [cited by applicant]
US 20140371088A1 · Webster · 2014 [cited by applicant]
US 20140377258A1 · Stern et al. · 2014 [cited by applicant]
US 20150011435A1 · Wu et al. · 2015 [cited by applicant]
US 20150018231A1 · Vallabhaneni · 2015 [cited by applicant]
US 20150038556A1 · Heartlein et al. · 2015 [cited by applicant]
US 20150051117A1 · Church et al. · 2015 [cited by applicant]
US 20150086981A1 · Cherkasov et al. · 2015 [cited by applicant]
US 20150105298A1 · Czaplinski · 2015 [cited by applicant]
US 20150110857A1 · Derosa et al. · 2015 [cited by applicant]
US 20150140070A1 · Heartlein et al. · 2015 [cited by applicant]
US 20150232935A1 · Deshpande et al. · 2015 [cited by applicant]
US 20150247204A1 · Deshpande et al. · 2015 [cited by applicant]
US 20150247205A1 · Deshpande et al. · 2015 [cited by applicant]
US 20150267251A1 · Cai et al. · 2015 [cited by applicant]
US 20150283142A1 · Stern et al. · 2015 [cited by applicant]
US 20150292007A1 · Church et al. · 2015 [cited by applicant]
US 20160054308A1 · Guo · 2016 [cited by applicant]
US 20160194701A1 · Beechem et al. · 2016 [cited by applicant]
US 20170212986A1 · Zhuang et al. · 2017 [cited by applicant]
US 20170220733A1 · Zhuang et al. · 2017 [cited by applicant]
US 20170327876A1 · Khafizov et al. · 2017 [cited by applicant]
US 20180142286A1 · Dunaway et al. · 2018 [cited by applicant]
US 20190055594A1 · Samusik et al. · 2019 [cited by applicant]
US 20190119742A1 · Zhang et al. · 2019 [cited by applicant]
US 20190161796A1 · Hauling et al. · 2019 [cited by applicant]
US 20190271028A1 · Khafizov et al. · 2019 [cited by applicant]
US 20190345548A1 · Dunaway et al. · 2019 [cited by applicant]
US 20190360025A1 · Persson et al. · 2019 [cited by applicant]
US 20190390258A1 · Dunaway et al. · 2019 [cited by applicant]
US 20200010891A1 · Beechem et al. · 2020 [cited by applicant]
US 20200071751A1 · Daugharthy et al. · 2020 [cited by applicant]
US 20210164039A1 · Wang et al. · 2021 [cited by applicant]
US 20210403992A1 · Pinard et al. · 2021 [cited by applicant]
US 20220040346A1 · Phillips et al. · 2022 [cited by applicant]
US 20220243260A1 · Rothmann et al. · 2022 [cited by applicant]
US 20220282313A1 · Khafizov et al. · 2022 [cited by applicant]
US 20220298559A1 · Daugharthy et al. · 2022 [cited by applicant]
US 20220333186A1 · Brown · 2022 [cited by applicant]
US 20220356519A1 · Shen et al. · 2022 [cited by applicant]
US 20220364160A1 · Nolan et al. · 2022 [cited by applicant]
US 20220403462A1 · Meyer et al. · 2022 [cited by applicant]
US 20220411862A1 · Spiecker et al. · 2022 [cited by applicant]
US 20230039899A1 · Larman et al. · 2023 [cited by applicant]
US 20230160004A1 · Beechem et al. · 2023 [cited by applicant]
US 20230183800A1 · Beechem et al. · 2023 [cited by applicant]
US 20230220461A1 · Dunaway et al. · 2023 [cited by applicant]
US 20230257800A1 · Dunaway et al. · 2023 [cited by applicant]
US 20240084361A1 · Dunaway et al. · 2024 [cited by applicant]
US 20240309432A1 · Khafizov et al. · 2024 [cited by applicant]
CN 101189345A · 2008 [cited by applicant]
CN 101432439A · 2009 [cited by applicant]
CN 101932729A · 2010 [cited by applicant]
CN 102439177A · 2012 [cited by applicant]
CN 102858995A · 2013 [cited by applicant]
CN 103635594A · 2014 [cited by applicant]
CN 107208144A · 2017 [cited by applicant]
EP 1672082A2 · 2006 [cited by applicant]
EP 2722388A1 · 2014 [cited by applicant]
EP 2766498A2 · 2014 [cited by applicant]
EP 2794928A · 2014 [cited by applicant]
EP 2971184A · 2016 [cited by applicant]
EP 3458601A1 · 2019 [cited by applicant]
EP 3472359A1 · 2019 [cited by applicant]
EP 4001432A1 · 2022 [cited by applicant]
EP 4039822A1 · 2022 [cited by applicant]
JP 2002537858A · 2002 [cited by applicant]
JP 2003517283A · 2003 [cited by applicant]
JP 2003523935A · 2003 [cited by applicant]
JP 2004298082A · 2004 [cited by applicant]
JP 2006129866A · 2006 [cited by applicant]
JP 2008512129A · 2008 [cited by applicant]
JP 2009519717A · 2009 [cited by applicant]
JP 2010539982A · 2010 [cited by applicant]
JP 2011525111A · 2011 [cited by applicant]
JP 2012500007A · 2012 [cited by applicant]
JP 2014531908A · 2014 [cited by applicant]
JP 2017535269A · 2017 [cited by applicant]
JP 2019522463A · 2019 [cited by applicant]
JP 2020500514A · 2020 [cited by applicant]
KR 1020050044668A · 2005 [cited by applicant]
KR 20060129469A · 2006 [cited by applicant]
WO WO9707245A1 · 1997 [cited by applicant]
WO WO9714028A2 · 1997 [cited by applicant]
WO WO9918434A1 · 1999 [cited by applicant]
WO WO0053805A1 · 2000 [cited by applicant]
WO WO0061807A1 · 2000 [cited by applicant]
WO WO0057701A1 · 2000 [cited by applicant]
WO WO0073777A1 · 2000 [cited by applicant]
WO WO0100875A2 · 2001 [cited by applicant]
WO WO03003810A2 · 2003 [cited by applicant]
WO WO03019141A1 · 2003 [cited by applicant]
WO WO03048387A · 2003 [cited by applicant]
WO WO03054214A2 · 2003 [cited by applicant]
WO WO2004067742A1 · 2004 [cited by applicant]
WO WO2005079462A2 · 2005 [cited by applicant]
WO WO2006031745A2 · 2006 [cited by applicant]
WO WO2006084132A2 · 2006 [cited by applicant]
WO WO2007070869A2 · 2007 [cited by applicant]
WO WO2007121489A2 · 2007 [cited by applicant]
WO WO2007133831A2 · 2007 [cited by applicant]
WO WO2008039998A2 · 2008 [cited by applicant]
WO WO2008069973A2 · 2008 [cited by applicant]
WO WO2009046149A1 · 2009 [cited by applicant]
WO WO2009076238A2 · 2009 [cited by applicant]
WO WO2009155181A1 · 2009 [cited by applicant]
WO WO2010019826A1 · 2010 [cited by applicant]
WO WO2010080134A1 · 2010 [cited by applicant]
WO WO2010081114A2 · 2010 [cited by applicant]
WO WO2010115154A1 · 2010 [cited by applicant]
WO WO2011032040A1 · 2011 [cited by applicant]
WO WO2011047087A2 · 2011 [cited by applicant]
WO WO2011106583A1 · 2011 [cited by applicant]
WO WO2011156434A2 · 2011 [cited by applicant]
WO WO2012049316A1 · 2012 [cited by applicant]
WO WO2012058638A2 · 2012 [cited by applicant]
WO WO2012150035A1 · 2012 [cited by applicant]
WO WO2012154876A1 · 2012 [cited by applicant]
WO WO2012157684A1 · 2012 [cited by applicant]
WO WO2012173274A1 · 2012 [cited by applicant]
WO WO2013053901A1 · 2013 [cited by applicant]
WO WO2013055995A2 · 2013 [cited by applicant]
WO WO2013096851A1 · 2013 [cited by applicant]
WO WO2013102108A2 · 2013 [cited by applicant]
WO WO2013184754A2 · 2013 [cited by applicant]
WO WO2014152321A1 · 2014 [cited by applicant]
WO WO2014153052A2 · 2014 [cited by applicant]
WO WO2014163886A1 · 2014 [cited by applicant]
WO WO2014165232A1 · 2014 [cited by applicant]
WO WO2014182598A1 · 2014 [cited by applicant]
WO WO2014186411A1 · 2014 [cited by applicant]
WO WO2014201232A2 · 2014 [cited by applicant]
WO WO2015031541A1 · 2015 [cited by applicant]
WO WO2015089449A2 · 2015 [cited by applicant]
WO WO2015095766A2 · 2015 [cited by applicant]
WO WO2015100459A2 · 2015 [cited by applicant]
WO WO2015108972A1 · 2015 [cited by applicant]
WO WO2015124738A1 · 2015 [cited by applicant]
WO WO2015127407A1 · 2015 [cited by applicant]
WO WO2015136509A2 · 2015 [cited by applicant]
WO WO2015143078A1 · 2015 [cited by applicant]
WO WO2015148531A1 · 2015 [cited by applicant]
WO WO2015148606A2 · 2015 [cited by applicant]
WO WO2016081740A1 · 2016 [cited by applicant]
WO WO2016168584A1 · 2016 [cited by applicant]
WO WO2017201073A1 · 2017 [cited by applicant]
WO WO2017222453A1 · 2017 [cited by applicant]
WO WO2018094385A1 · 2018 [cited by applicant]
WO WO2019222178A1 · 2019 [cited by applicant]
WO WO2022197801A1 · 2022 [cited by applicant]
U.S. Appl. No. 18/172,771, filed Feb. 22, 2023. [cited by applicant]
U.S. Appl. No. 17/688,174, filed Mar. 7, 2022. [cited by applicant]
U.S. Appl. No. 18/471,447, filed Sep. 21, 2023. [cited by applicant]
U.S. Appl. No. 18/179,684, filed Mar. 7, 2023. [cited by applicant]
U.S. Appl. No. 18/069,565, filed Dec. 21, 2022. [cited by applicant]
Alfano, R. R. et al., “Optical Sensing, Imaging, and Manipulation for Biological and biomedical applications,” SPIE—The International Society for Optical Engineering, Jul. 2000, vol. 4082, Taiwan. [cited by applicant]
Bolzer, A. et al., “Three-Dimensional Maps of All Chromosomes in Human Male Fibroblast Nuclei and Prometaphase Rosettes,” PloS Biol., 3(5):e157 (2005), 17 pages; doi: 10.1371/journal.pbio.0030157. [cited by applicant]
Chen, K. H. et al., “Spatially resolved, highly multiplexed RNA profiling in single cells,” Science, 348, aaa6090 (2015), 16 pages; doi:10.1126/science.aaa6090. [cited by applicant]
Collins M. L. et al., “A branched DNA signal amplification assay for quantification of nucleic acid targets below 100 molecules/ml,” Nucleic Acids Research, 25(15):2979-2984 (1997). [cited by applicant]
De Capoa, A. et al., “Computer-Assisted Analysis of Methylation Status of Individual Interphase Nuclei in Human Cultured Cells,” Cytometry, 31:85-92 (1998). [cited by applicant]
Duose, D. Y. et al., “Multiplexed and Reiterative Fluorescence Labeling via DNA Circuitry,” Bioconjugate Chem., 21:2327-2331 (2010). [cited by applicant]
Eid, J. et al., “Real-Time DNA Sequencing from Single Polymerase Molecules,” Science, 323:133-138 (2009). [cited by applicant]
Emanuel, G. & He, Jiang, “Using MERSCOPE to Generate a Cell Atlas of the Mouse Brain that Includes Lowly Expressed Genes,” Microscopy Today, Nov. 2021, Published online by Cambridge University Press: Dec. 2, 202116 page… [cited by applicant]
Fang, R. et al., “Conservation and divergence in cortical cellular organization between human and mouse revealed by single-cell transcriptome imaging,” bioRxiv; Nov. 2, 2021, 57 pages; https://doi.org/10.1101/2021.11.01… [cited by applicant]
Femino, A. M. et al., “Visualization of Single RNA Transcripts in Situ,” Science, 280:585-590 (1998). [cited by applicant]
Ferguson, J. A. et al., “High-Density Fiber-Optic DNA Random Microsphere Array,” Analytical Chemistry, 72(22):5618-5624 (2000). [cited by applicant]
Geiss, G. K. et al., “Direct multiplexed measurement of gene expression with color-coded probe pairs,” Nature Biotechnology, 26(3):317-325 (2008). [cited by applicant]
Göransson, J. et al., “A single molecule array for digital targeted molecular analyses,” Nucleic Acids Research, 37(1):e7 (2008), 9 pages; doi:10.1093/nar/gkn921. [cited by applicant]
Gunderson, K. L. et al., “Decoding Randomly Ordered DNA Arrays,” Genome Res, 14(5):870-877 (2004); doi: 10.1101/gr.2255804. Epub Apr. 12, 2004. [cited by applicant]
Hauser, N. C. et al., “Utilising the left-helical conformation of L-DNA for analysing different marker types on a single universal microarray platform,” Nucleic Acids Research, 34(18):5101-5111 (2006). [cited by applicant]
Itzkovitz, S. & Van Oudenaarden, A., “Validating transcripts with probes and imaging technology,” Nature Methods Supplement, 8(4S):S12-S19 (2011). [cited by applicant]
Jungmann, R. et al., “Multiplexed 3D Cellular Super-Resolution Imaging with DNA-PAINT and Exchange-PAINT,” Nat Methods, 11(3):313-318 (2014). [cited by applicant]
Kosman, D. et al., “Multiplex Detection of RNA Expression in [cited by applicant]
Kosman, D. et al., “Multiplex Detection of RNA Expression in [cited by applicant]
Lin, C. et al., “Submicrometre geometrically encoded fluorescent barcodes self-assembled from DNA,” Nature Chemistry, 4:832-839 (2012). [cited by applicant]
Liu, J. et al., “Comparative analysis of MERFISH spatial transcriptomics with bulk and single-cell RNA sequencing,” bioRxiv; Mar. 7, 2022, 48 pages; https://doi.org/10.1101/2022.03.04.483068. [cited by applicant]
Lu, Y. et al., “Spatial transcriptome profiling by MERFISH reveals fetal liver hematopoietic stem cell niche architecture,” Cell Discov, 7:47 (2021), 17 pages; https://doi.org/10.1038/s41421-021-00266-1. [cited by applicant]
Merscope™ Instrument User Guide, Document No. 91600001, Document Revision: Rev B, Revision Date Oct. 2021, 39 pages; https://vizgen.com/. [cited by applicant]
Merscope™ User Guide, Fresh and Fixed Frozen Tissue Sample Preparation, Document No. 91600002, Document Revision Rev B, Revision Date Oct. 2021, 28 pages; https://vizgen.com/. [cited by applicant]
Moffitt, J. R. & Zhuang, X., “RNA Imaging with Multiplexed Error-Robust Fluorescence In Situ Hybridization (MERFISH),” Methods in Enzymology, vol. 572 (2016), 49 pages; https://doi.org/10.1016/bs.mie.2016.03.020. [cited by applicant]
Moffitt, J. R. et al., “High-throughput single-cell gene-expression profiling with multiplexed error-robust fluorescence in situ hybridization,” PNAS, 113(39):11046-11051 (2016). [cited by applicant]
Cited By (1)
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