Granted Patent
B2
US 12,258,454 · App. 18/523,580 · Granted Mar 25, 2025
Swellable and structurally homogenous hydrogels and methods of use thereof
Inventors:
Ruixuan Gao (Cambridge, MA); Linyi Gao (Cambridge, MA); Chih-Chieh Yu (Cambridge, MA); Edward Stuart Boyden (Chestnut Hill, MA)
Assignee:
Massachusetts Institute of Technology
C08J3/075C08F8/00C08F8/12C08F8/30C08F8/44C08F222/104C08G65/2624C08G65/32C08G81/025C08J3/246C12Q1/68C12Q1/6834C12Q1/6841C12Q1/6869G01N1/30G01N33/545C08F220/04C08F220/303C08F220/346C08F2438/01C08G2210/00C08J2300/206C08J2400/206C12Q2523/101G01N1/36G01N15/0205
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Abstract
The invention encompasses hydrogels, monomer precursors of the hydrogels, methods for the preparation thereof, and methods of use therefor. The linking of monomers can take place using non-radical, bioorthogonal reactions such as copper-free click-chemistry.
Claims (62)
1. A hydrogel that is the product of a non-radical polymerization reaction between a monomer of Formula (A5):
and a monomer of Formula (B1):
wherein:
each n is an integer greater than or equal to 1;
each p is an integer greater than or equal to 1;
E is a moiety comprising a charged functional group;
Z is a counter ion;
X and Y 1 are each crosslinkable moieties; and
X and Y 1 covalently crosslink to end-link the monomers.
2. A monomer of Formula (A5):
wherein:
each n is an integer greater than or equal to 1;
Z is a counter ion;
X is a crosslinkable moiety; and
E is a moiety comprising a charged functional group.
3. A monomer of Formula (B1):
wherein:
Y 1 is a crosslinkable moiety; and
each p is an integer greater than or equal to 1.
4. The hydrogel of claim 1 , wherein X is a moiety comprising a terminal azide group.
5. The hydrogel of claim 4 , wherein X is an azide.
6. The hydrogel of claim 1 , wherein Y 1 comprises a terminal alkyne.
7. The hydrogel of claim 1 , wherein X is a moiety comprising a terminal azide group and Y 1 is a moiety comprising a terminal alkyne, and wherein X and Y 1 crosslink by copper-free azide-alkyne cycloaddition.
8. The hydrogel of claim 1 , wherein X and Y 1 crosslink by amine-NHS ester reaction.
9. The hydrogel of claim 1 , wherein X and Y 1 crosslink by maleimide-thiol reaction.
10. The hydrogel of claim 1 , wherein X and Y 1 crosslink by trans-cyclooctene (TCO)-tetrazine reaction.
11. The hydrogel of claim 1 , wherein the hydrogel is labelled.
12. A composite comprising a biological sample and the hydrogel of claim 1 .
13. A method of preparing the composite of claim 12 , comprising permeating the biological sample with a monomer of Formula (A5) and a monomer of Formula (B1) to form the hydrogel by non-radical polymerization.
14. A method of microscopy comprising:
a. permeating a biological sample with a monomer of Formula (A5):
and a monomer of Formula (B1):
to form a composite comprising the biological sample and the hydrogel according to claim 1 by non-radical polymerization;
b. isotropically expanding the composite by contacting it with an aqueous solution; and
c. viewing the expanded composite using microscopy;
wherein:
each n is an integer greater than or equal to 1;
each p is an integer greater than or equal to 1;
Z is a counter ion;
X and Y 1 are each crosslinkable moieties; and
X and Y 1 covalently crosslink to end-link the monomers.
15. A method for in-situ sequencing of target nucleic acids present in a biological sample comprising the steps of:
a. attaching target nucleic acids present in the biological sample with a molecule linker or nucleic acid adapter;
b. permeating the biological sample with a monomer of Formula (A5):
and a monomer of Formula (B1):
to form a hydrogel according to claim 1 by non-radical polymerization and thereby forming a sample-hydrogel complex, wherein the molecule linker or nucleic acid adaptor is attached both to the target nucleic acids present in the biological sample and to the hydrogel;
c. digesting proteins present in the biological sample;
d. expanding the sample-hydrogel complex to form a first enlarged sample;
e. re-embedding the first enlarged sample in a non-swellable material to form a re-embedded complex; and
f. sequencing nucleic acids present in the re-embedded complex;
wherein:
each n is an integer greater than or equal to 1;
each p is an integer greater than or equal to 1;
Z is a counter ion;
X and Y 1 are each crosslinkable moieties; and
X and Y 1 covalently crosslink to end-link the monomers.
16. A method for enlarging a biological sample for microscopy, the method comprising the steps of:
a. permeating a sample with a first hydrogel, wherein the sample is anchored to the first hydrogel;
b. swelling the first hydrogel, resulting in a first expanded sample;
c. optionally permeating the first expanded sample with a second hydrogel; and
d. optionally swelling the second hydrogel, resulting in a second expanded sample;
wherein the first hydrogel and/or the second hydrogel is the hydrogel of claim 1 .
Assignments (1)
ASSIGNMENT OF ASSIGNOR'S INTEREST
Recorded Dec 5, 2023
From: GAO, RUIXUAN; GAO, LINYI; YU, CHIH-CHIEH; BOYDEN, EDWARD STUART
To: MASSACHUSETTS INSTITUTE OF TECHNOLOGY
Reel/Frame 065768/0990 →
Continuity (3)
Provisional Application
62626920
· Feb 6, 2018
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