CA3004310A1 - Combinatorial sets of nucleic acid barcodes for analysis of nucleic acids associated with single cells - Google Patents
Combinatorial sets of nucleic acid barcodes for analysis of nucleic acids associated with single cells Download PDFInfo
- Publication number
- CA3004310A1 CA3004310A1 CA3004310A CA3004310A CA3004310A1 CA 3004310 A1 CA3004310 A1 CA 3004310A1 CA 3004310 A CA3004310 A CA 3004310A CA 3004310 A CA3004310 A CA 3004310A CA 3004310 A1 CA3004310 A1 CA 3004310A1
- Authority
- CA
- Canada
- Prior art keywords
- nucleic acid
- barcode
- sequence
- barcodes
- sample
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
- Pending
Links
- 150000007523 nucleic acids Chemical class 0.000 title claims abstract description 367
- 102000039446 nucleic acids Human genes 0.000 title claims abstract description 362
- 108020004707 nucleic acids Proteins 0.000 title claims abstract description 362
- 238000004458 analytical method Methods 0.000 title description 21
- 238000000034 method Methods 0.000 claims abstract description 135
- 239000011541 reaction mixture Substances 0.000 claims abstract description 49
- 239000011324 bead Substances 0.000 claims description 124
- 230000027455 binding Effects 0.000 claims description 59
- 239000007787 solid Substances 0.000 claims description 53
- 230000000295 complement effect Effects 0.000 claims description 35
- 239000000872 buffer Substances 0.000 claims description 34
- 108020004999 messenger RNA Proteins 0.000 claims description 34
- 108091008146 restriction endonucleases Proteins 0.000 claims description 30
- 108010092799 RNA-directed DNA polymerase Proteins 0.000 claims description 26
- 238000010839 reverse transcription Methods 0.000 claims description 25
- 230000037452 priming Effects 0.000 claims description 22
- 102000004190 Enzymes Human genes 0.000 claims description 21
- 108090000790 Enzymes Proteins 0.000 claims description 21
- 239000000725 suspension Substances 0.000 claims description 15
- 239000000017 hydrogel Substances 0.000 claims description 14
- 108010014303 DNA-directed DNA polymerase Proteins 0.000 claims description 11
- 102000016928 DNA-directed DNA polymerase Human genes 0.000 claims description 11
- 238000012163 sequencing technique Methods 0.000 claims description 11
- 102000004163 DNA-directed RNA polymerases Human genes 0.000 claims description 5
- 108090000626 DNA-directed RNA polymerases Proteins 0.000 claims description 5
- 108091081548 Palindromic sequence Proteins 0.000 claims description 5
- 239000011325 microbead Substances 0.000 claims description 4
- 239000011859 microparticle Substances 0.000 claims description 4
- 239000004005 microsphere Substances 0.000 claims description 4
- 239000002102 nanobead Substances 0.000 claims description 4
- 241000713869 Moloney murine leukemia virus Species 0.000 claims description 3
- 230000002934 lysing effect Effects 0.000 claims description 3
- 239000002105 nanoparticle Substances 0.000 claims description 3
- 235000018417 cysteine Nutrition 0.000 claims description 2
- XUJNEKJLAYXESH-UHFFFAOYSA-N cysteine Natural products SCC(N)C(O)=O XUJNEKJLAYXESH-UHFFFAOYSA-N 0.000 claims description 2
- 125000000151 cysteine group Chemical group N[C@@H](CS)C(=O)* 0.000 claims description 2
- 102100034343 Integrase Human genes 0.000 claims 4
- 210000004027 cell Anatomy 0.000 description 206
- 239000000523 sample Substances 0.000 description 114
- 238000006243 chemical reaction Methods 0.000 description 65
- 102000040430 polynucleotide Human genes 0.000 description 49
- 108091033319 polynucleotide Proteins 0.000 description 49
- 239000002157 polynucleotide Substances 0.000 description 49
- 108091032973 (ribonucleotides)n+m Proteins 0.000 description 45
- 125000003729 nucleotide group Chemical class 0.000 description 43
- 108091034117 Oligonucleotide Proteins 0.000 description 41
- 239000002299 complementary DNA Substances 0.000 description 40
- 239000002773 nucleotide Substances 0.000 description 40
- 108020004414 DNA Proteins 0.000 description 28
- 230000037361 pathway Effects 0.000 description 28
- 239000000203 mixture Substances 0.000 description 26
- 102100031780 Endonuclease Human genes 0.000 description 23
- 102000040650 (ribonucleotides)n+m Human genes 0.000 description 22
- 239000013615 primer Substances 0.000 description 22
- 239000003153 chemical reaction reagent Substances 0.000 description 20
- 238000013459 approach Methods 0.000 description 18
- 238000004422 calculation algorithm Methods 0.000 description 17
- 238000009826 distribution Methods 0.000 description 17
- 238000003752 polymerase chain reaction Methods 0.000 description 17
- 239000007864 aqueous solution Substances 0.000 description 16
- UYTPUPDQBNUYGX-UHFFFAOYSA-N guanine Chemical group O=C1NC(N)=NC2=C1N=CN2 UYTPUPDQBNUYGX-UHFFFAOYSA-N 0.000 description 14
- 108091028043 Nucleic acid sequence Proteins 0.000 description 12
- 108020004635 Complementary DNA Proteins 0.000 description 11
- ISAKRJDGNUQOIC-UHFFFAOYSA-N Uracil Chemical compound O=C1C=CNC(=O)N1 ISAKRJDGNUQOIC-UHFFFAOYSA-N 0.000 description 10
- OPTASPLRGRRNAP-UHFFFAOYSA-N cytosine Chemical group NC=1C=CNC(=O)N=1 OPTASPLRGRRNAP-UHFFFAOYSA-N 0.000 description 10
- 239000012530 fluid Substances 0.000 description 10
- 102000053602 DNA Human genes 0.000 description 8
- 230000003321 amplification Effects 0.000 description 8
- 239000006285 cell suspension Substances 0.000 description 8
- 238000003199 nucleic acid amplification method Methods 0.000 description 8
- 230000002441 reversible effect Effects 0.000 description 8
- 108091093088 Amplicon Proteins 0.000 description 7
- 230000015572 biosynthetic process Effects 0.000 description 7
- 238000011109 contamination Methods 0.000 description 7
- -1 e.g. Substances 0.000 description 7
- 239000000839 emulsion Substances 0.000 description 7
- 230000004048 modification Effects 0.000 description 7
- 238000012986 modification Methods 0.000 description 7
- 230000008901 benefit Effects 0.000 description 6
- 239000000463 material Substances 0.000 description 6
- 239000000243 solution Substances 0.000 description 6
- 238000003786 synthesis reaction Methods 0.000 description 6
- 229930024421 Adenine Natural products 0.000 description 5
- GFFGJBXGBJISGV-UHFFFAOYSA-N Adenine Chemical compound NC1=NC=NC2=C1N=CN2 GFFGJBXGBJISGV-UHFFFAOYSA-N 0.000 description 5
- 229960000643 adenine Drugs 0.000 description 5
- 238000001816 cooling Methods 0.000 description 5
- 230000009089 cytolysis Effects 0.000 description 5
- 238000002360 preparation method Methods 0.000 description 5
- 108090000623 proteins and genes Proteins 0.000 description 5
- 238000012360 testing method Methods 0.000 description 5
- 229940035893 uracil Drugs 0.000 description 5
- YBJHBAHKTGYVGT-ZKWXMUAHSA-N (+)-Biotin Chemical compound N1C(=O)N[C@@H]2[C@H](CCCCC(=O)O)SC[C@@H]21 YBJHBAHKTGYVGT-ZKWXMUAHSA-N 0.000 description 4
- 101100519158 Arabidopsis thaliana PCR2 gene Proteins 0.000 description 4
- 101710147059 Nicking endonuclease Proteins 0.000 description 4
- FAPWRFPIFSIZLT-UHFFFAOYSA-M Sodium chloride Chemical compound [Na+].[Cl-] FAPWRFPIFSIZLT-UHFFFAOYSA-M 0.000 description 4
- 238000000137 annealing Methods 0.000 description 4
- 239000000356 contaminant Substances 0.000 description 4
- 229940104302 cytosine Drugs 0.000 description 4
- 238000005516 engineering process Methods 0.000 description 4
- 230000006872 improvement Effects 0.000 description 4
- 238000010348 incorporation Methods 0.000 description 4
- 238000002347 injection Methods 0.000 description 4
- 239000007924 injection Substances 0.000 description 4
- 230000003993 interaction Effects 0.000 description 4
- 238000011068 loading method Methods 0.000 description 4
- 230000007246 mechanism Effects 0.000 description 4
- 239000002245 particle Substances 0.000 description 4
- 230000008569 process Effects 0.000 description 4
- 108020004682 Single-Stranded DNA Proteins 0.000 description 3
- JLCPHMBAVCMARE-UHFFFAOYSA-N [3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-[[3-[[3-[[3-[[3-[[3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methyl [5-(6-aminopurin-9-yl)-2-(hydroxymethyl)oxolan-3-yl] hydrogen phosphate Polymers Cc1cn(C2CC(OP(O)(=O)OCC3OC(CC3OP(O)(=O)OCC3OC(CC3O)n3cnc4c3nc(N)[nH]c4=O)n3cnc4c3nc(N)[nH]c4=O)C(COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3CO)n3cnc4c(N)ncnc34)n3ccc(N)nc3=O)n3cnc4c(N)ncnc34)n3ccc(N)nc3=O)n3ccc(N)nc3=O)n3ccc(N)nc3=O)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cc(C)c(=O)[nH]c3=O)n3cc(C)c(=O)[nH]c3=O)n3ccc(N)nc3=O)n3cc(C)c(=O)[nH]c3=O)n3cnc4c3nc(N)[nH]c4=O)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)O2)c(=O)[nH]c1=O JLCPHMBAVCMARE-UHFFFAOYSA-N 0.000 description 3
- 238000005119 centrifugation Methods 0.000 description 3
- 238000012864 cross contamination Methods 0.000 description 3
- 238000013461 design Methods 0.000 description 3
- 238000005538 encapsulation Methods 0.000 description 3
- 238000001976 enzyme digestion Methods 0.000 description 3
- 238000002474 experimental method Methods 0.000 description 3
- 238000001943 fluorescence-activated cell sorting Methods 0.000 description 3
- 239000012634 fragment Substances 0.000 description 3
- 239000007788 liquid Substances 0.000 description 3
- 238000003757 reverse transcription PCR Methods 0.000 description 3
- 230000009919 sequestration Effects 0.000 description 3
- 108091003079 Bovine Serum Albumin Proteins 0.000 description 2
- 229930010555 Inosine Natural products 0.000 description 2
- UGQMRVRMYYASKQ-KQYNXXCUSA-N Inosine Chemical compound O[C@@H]1[C@H](O)[C@@H](CO)O[C@H]1N1C2=NC=NC(O)=C2N=C1 UGQMRVRMYYASKQ-KQYNXXCUSA-N 0.000 description 2
- 238000012408 PCR amplification Methods 0.000 description 2
- 108010090804 Streptavidin Proteins 0.000 description 2
- 101710137500 T7 RNA polymerase Proteins 0.000 description 2
- IQFYYKKMVGJFEH-XLPZGREQSA-N Thymidine Chemical compound O=C1NC(=O)C(C)=CN1[C@@H]1O[C@H](CO)[C@@H](O)C1 IQFYYKKMVGJFEH-XLPZGREQSA-N 0.000 description 2
- 239000008365 aqueous carrier Substances 0.000 description 2
- 229960002685 biotin Drugs 0.000 description 2
- 235000020958 biotin Nutrition 0.000 description 2
- 239000011616 biotin Substances 0.000 description 2
- 229940098773 bovine serum albumin Drugs 0.000 description 2
- 230000006037 cell lysis Effects 0.000 description 2
- 238000003776 cleavage reaction Methods 0.000 description 2
- 238000007405 data analysis Methods 0.000 description 2
- 238000004925 denaturation Methods 0.000 description 2
- 230000036425 denaturation Effects 0.000 description 2
- 239000010459 dolomite Substances 0.000 description 2
- 229910000514 dolomite Inorganic materials 0.000 description 2
- 230000009977 dual effect Effects 0.000 description 2
- 230000000694 effects Effects 0.000 description 2
- 238000006911 enzymatic reaction Methods 0.000 description 2
- 230000002068 genetic effect Effects 0.000 description 2
- 238000009396 hybridization Methods 0.000 description 2
- 239000012051 hydrophobic carrier Substances 0.000 description 2
- 229960003786 inosine Drugs 0.000 description 2
- 238000004519 manufacturing process Methods 0.000 description 2
- 230000011987 methylation Effects 0.000 description 2
- 238000007069 methylation reaction Methods 0.000 description 2
- 238000010369 molecular cloning Methods 0.000 description 2
- 210000003819 peripheral blood mononuclear cell Anatomy 0.000 description 2
- 238000006116 polymerization reaction Methods 0.000 description 2
- 229920001184 polypeptide Chemical group 0.000 description 2
- 238000011176 pooling Methods 0.000 description 2
- 102000004196 processed proteins & peptides Human genes 0.000 description 2
- 108090000765 processed proteins & peptides Chemical group 0.000 description 2
- 238000012545 processing Methods 0.000 description 2
- 239000000376 reactant Substances 0.000 description 2
- 238000011160 research Methods 0.000 description 2
- 230000007017 scission Effects 0.000 description 2
- 239000011780 sodium chloride Substances 0.000 description 2
- 238000010561 standard procedure Methods 0.000 description 2
- 239000000126 substance Substances 0.000 description 2
- 239000000758 substrate Substances 0.000 description 2
- 238000013518 transcription Methods 0.000 description 2
- 230000035897 transcription Effects 0.000 description 2
- 238000011179 visual inspection Methods 0.000 description 2
- XLYOFNOQVPJJNP-UHFFFAOYSA-N water Substances O XLYOFNOQVPJJNP-UHFFFAOYSA-N 0.000 description 2
- RBAFCMJBDZWZIV-UHFFFAOYSA-N (2,5-dioxopyrrolidin-1-yl) 4-azido-2-hydroxybenzoate Chemical group OC1=CC(N=[N+]=[N-])=CC=C1C(=O)ON1C(=O)CCC1=O RBAFCMJBDZWZIV-UHFFFAOYSA-N 0.000 description 1
- IHPYMWDTONKSCO-UHFFFAOYSA-N 2,2'-piperazine-1,4-diylbisethanesulfonic acid Chemical compound OS(=O)(=O)CCN1CCN(CCS(O)(=O)=O)CC1 IHPYMWDTONKSCO-UHFFFAOYSA-N 0.000 description 1
- MSVCQAUKLQEIJJ-UHFFFAOYSA-N 7-nitro-2,3-dihydro-1h-indole Chemical group [O-][N+](=O)C1=CC=CC2=C1NCC2 MSVCQAUKLQEIJJ-UHFFFAOYSA-N 0.000 description 1
- 108700028369 Alleles Proteins 0.000 description 1
- 108090001008 Avidin Proteins 0.000 description 1
- DWRXFEITVBNRMK-UHFFFAOYSA-N Beta-D-1-Arabinofuranosylthymine Natural products O=C1NC(=O)C(C)=CN1C1C(O)C(O)C(CO)O1 DWRXFEITVBNRMK-UHFFFAOYSA-N 0.000 description 1
- KWIUHFFTVRNATP-UHFFFAOYSA-N Betaine Natural products C[N+](C)(C)CC([O-])=O KWIUHFFTVRNATP-UHFFFAOYSA-N 0.000 description 1
- 108091033380 Coding strand Proteins 0.000 description 1
- 108020001019 DNA Primers Proteins 0.000 description 1
- 239000003155 DNA primer Substances 0.000 description 1
- 230000006820 DNA synthesis Effects 0.000 description 1
- 230000004568 DNA-binding Effects 0.000 description 1
- KCXVZYZYPLLWCC-UHFFFAOYSA-N EDTA Chemical compound OC(=O)CN(CC(O)=O)CCN(CC(O)=O)CC(O)=O KCXVZYZYPLLWCC-UHFFFAOYSA-N 0.000 description 1
- 108010042407 Endonucleases Proteins 0.000 description 1
- 241000701959 Escherichia virus Lambda Species 0.000 description 1
- 108091092195 Intron Proteins 0.000 description 1
- 238000007476 Maximum Likelihood Methods 0.000 description 1
- 241001465754 Metazoa Species 0.000 description 1
- KWIUHFFTVRNATP-UHFFFAOYSA-O N,N,N-trimethylglycinium Chemical compound C[N+](C)(C)CC(O)=O KWIUHFFTVRNATP-UHFFFAOYSA-O 0.000 description 1
- 239000007990 PIPES buffer Substances 0.000 description 1
- 229920001213 Polysorbate 20 Polymers 0.000 description 1
- 239000004793 Polystyrene Substances 0.000 description 1
- 239000013614 RNA sample Substances 0.000 description 1
- 230000006819 RNA synthesis Effects 0.000 description 1
- 230000004570 RNA-binding Effects 0.000 description 1
- 108091028664 Ribonucleotide Proteins 0.000 description 1
- 108091027568 Single-stranded nucleotide Proteins 0.000 description 1
- 208000002847 Surgical Wound Diseases 0.000 description 1
- 230000002411 adverse Effects 0.000 description 1
- 125000000539 amino acid group Chemical group 0.000 description 1
- 230000004888 barrier function Effects 0.000 description 1
- 238000010009 beating Methods 0.000 description 1
- 230000009286 beneficial effect Effects 0.000 description 1
- ISAOCJYIOMOJEB-UHFFFAOYSA-N benzoin Chemical group C=1C=CC=CC=1C(O)C(=O)C1=CC=CC=C1 ISAOCJYIOMOJEB-UHFFFAOYSA-N 0.000 description 1
- IQFYYKKMVGJFEH-UHFFFAOYSA-N beta-L-thymidine Natural products O=C1NC(=O)C(C)=CN1C1OC(CO)C(O)C1 IQFYYKKMVGJFEH-UHFFFAOYSA-N 0.000 description 1
- 229960003237 betaine Drugs 0.000 description 1
- 239000012148 binding buffer Substances 0.000 description 1
- 238000001574 biopsy Methods 0.000 description 1
- 230000006287 biotinylation Effects 0.000 description 1
- 238000007413 biotinylation Methods 0.000 description 1
- 210000004369 blood Anatomy 0.000 description 1
- 239000008280 blood Substances 0.000 description 1
- 210000001124 body fluid Anatomy 0.000 description 1
- 239000010839 body fluid Substances 0.000 description 1
- 238000010804 cDNA synthesis Methods 0.000 description 1
- 125000003178 carboxy group Chemical group [H]OC(*)=O 0.000 description 1
- 230000003197 catalytic effect Effects 0.000 description 1
- 230000001413 cellular effect Effects 0.000 description 1
- 125000003636 chemical group Chemical group 0.000 description 1
- 239000003795 chemical substances by application Substances 0.000 description 1
- 239000000306 component Substances 0.000 description 1
- 150000001875 compounds Chemical class 0.000 description 1
- 238000004590 computer program Methods 0.000 description 1
- 238000000354 decomposition reaction Methods 0.000 description 1
- 230000007423 decrease Effects 0.000 description 1
- 238000012217 deletion Methods 0.000 description 1
- 230000037430 deletion Effects 0.000 description 1
- 238000002716 delivery method Methods 0.000 description 1
- 230000001627 detrimental effect Effects 0.000 description 1
- LOKCTEFSRHRXRJ-UHFFFAOYSA-I dipotassium trisodium dihydrogen phosphate hydrogen phosphate dichloride Chemical compound P(=O)(O)(O)[O-].[K+].P(=O)(O)([O-])[O-].[Na+].[Na+].[Cl-].[K+].[Cl-].[Na+] LOKCTEFSRHRXRJ-UHFFFAOYSA-I 0.000 description 1
- 239000003814 drug Substances 0.000 description 1
- 239000012149 elution buffer Substances 0.000 description 1
- 238000004945 emulsification Methods 0.000 description 1
- 125000003700 epoxy group Chemical group 0.000 description 1
- 210000003527 eukaryotic cell Anatomy 0.000 description 1
- 230000029142 excretion Effects 0.000 description 1
- PCHJSUWPFVWCPO-UHFFFAOYSA-N gold Chemical compound [Au] PCHJSUWPFVWCPO-UHFFFAOYSA-N 0.000 description 1
- 239000010931 gold Substances 0.000 description 1
- 229910052737 gold Inorganic materials 0.000 description 1
- 238000003306 harvesting Methods 0.000 description 1
- 125000002887 hydroxy group Chemical group [H]O* 0.000 description 1
- YNRKXBSUORGBIU-UHFFFAOYSA-N hydroxycarbamothioic s-acid Chemical compound ONC(S)=O YNRKXBSUORGBIU-UHFFFAOYSA-N 0.000 description 1
- 239000004615 ingredient Substances 0.000 description 1
- 230000000977 initiatory effect Effects 0.000 description 1
- 238000003780 insertion Methods 0.000 description 1
- 230000037431 insertion Effects 0.000 description 1
- 238000002032 lab-on-a-chip Methods 0.000 description 1
- 238000002372 labelling Methods 0.000 description 1
- 238000000370 laser capture micro-dissection Methods 0.000 description 1
- 230000000670 limiting effect Effects 0.000 description 1
- 239000012139 lysis buffer Substances 0.000 description 1
- 230000005389 magnetism Effects 0.000 description 1
- 229910052751 metal Inorganic materials 0.000 description 1
- 239000002184 metal Substances 0.000 description 1
- 150000002739 metals Chemical class 0.000 description 1
- 238000002156 mixing Methods 0.000 description 1
- 239000002991 molded plastic Substances 0.000 description 1
- 230000035772 mutation Effects 0.000 description 1
- 238000007857 nested PCR Methods 0.000 description 1
- 230000008723 osmotic stress Effects 0.000 description 1
- 238000004806 packaging method and process Methods 0.000 description 1
- 230000036961 partial effect Effects 0.000 description 1
- 239000008188 pellet Substances 0.000 description 1
- 238000005191 phase separation Methods 0.000 description 1
- 239000002953 phosphate buffered saline Substances 0.000 description 1
- 150000008300 phosphoramidites Chemical class 0.000 description 1
- 230000035479 physiological effects, processes and functions Effects 0.000 description 1
- 239000000256 polyoxyethylene sorbitan monolaurate Substances 0.000 description 1
- 235000010486 polyoxyethylene sorbitan monolaurate Nutrition 0.000 description 1
- 229920002223 polystyrene Polymers 0.000 description 1
- 238000013138 pruning Methods 0.000 description 1
- 230000002829 reductive effect Effects 0.000 description 1
- 229920005989 resin Polymers 0.000 description 1
- 239000011347 resin Substances 0.000 description 1
- 230000000717 retained effect Effects 0.000 description 1
- 239000003161 ribonuclease inhibitor Substances 0.000 description 1
- 239000002336 ribonucleotide Substances 0.000 description 1
- 125000002652 ribonucleotide group Chemical group 0.000 description 1
- 210000003705 ribosome Anatomy 0.000 description 1
- 238000007790 scraping Methods 0.000 description 1
- 238000005204 segregation Methods 0.000 description 1
- 230000035945 sensitivity Effects 0.000 description 1
- 238000000926 separation method Methods 0.000 description 1
- 241000894007 species Species 0.000 description 1
- 238000006467 substitution reaction Methods 0.000 description 1
- 230000001360 synchronised effect Effects 0.000 description 1
- 238000005382 thermal cycling Methods 0.000 description 1
- 125000003396 thiol group Chemical group [H]S* 0.000 description 1
- 229940104230 thymidine Drugs 0.000 description 1
- 230000017105 transposition Effects 0.000 description 1
- 238000011144 upstream manufacturing Methods 0.000 description 1
- 239000011534 wash buffer Substances 0.000 description 1
- 238000005406 washing Methods 0.000 description 1
Classifications
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
- C12N15/1034—Isolating an individual clone by screening libraries
- C12N15/1065—Preparation or screening of tagged libraries, e.g. tagged microorganisms by STM-mutagenesis, tagged polynucleotides, gene tags
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
- C12N15/1096—Processes for the isolation, preparation or purification of DNA or RNA cDNA Synthesis; Subtracted cDNA library construction, e.g. RT, RT-PCR
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6806—Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2523/00—Reactions characterised by treatment of reaction samples
- C12Q2523/30—Characterised by physical treatment
- C12Q2523/319—Photocleavage, photolysis, photoactivation
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
- C12Q2525/10—Modifications characterised by
- C12Q2525/173—Modifications characterised by incorporating a polynucleotide run, e.g. polyAs, polyTs
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
- C12Q2525/10—Modifications characterised by
- C12Q2525/191—Modifications characterised by incorporating an adaptor
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2535/00—Reactions characterised by the assay type for determining the identity of a nucleotide base or a sequence of oligonucleotides
- C12Q2535/122—Massive parallel sequencing
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2563/00—Nucleic acid detection characterized by the use of physical, structural and functional properties
- C12Q2563/149—Particles, e.g. beads
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2563/00—Nucleic acid detection characterized by the use of physical, structural and functional properties
- C12Q2563/159—Microreactors, e.g. emulsion PCR or sequencing, droplet PCR, microcapsules, i.e. non-liquid containers with a range of different permeability's for different reaction components
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2563/00—Nucleic acid detection characterized by the use of physical, structural and functional properties
- C12Q2563/179—Nucleic acid detection characterized by the use of physical, structural and functional properties the label being a nucleic acid
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2563/00—Nucleic acid detection characterized by the use of physical, structural and functional properties
- C12Q2563/185—Nucleic acid dedicated to use as a hidden marker/bar code, e.g. inclusion of nucleic acids to mark art objects or animals
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2565/00—Nucleic acid analysis characterised by mode or means of detection
- C12Q2565/50—Detection characterised by immobilisation to a surface
- C12Q2565/514—Detection characterised by immobilisation to a surface characterised by the use of the arrayed oligonucleotides as identifier tags, e.g. universal addressable array, anti-tag or tag complement array
Landscapes
- Chemical & Material Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Engineering & Computer Science (AREA)
- Organic Chemistry (AREA)
- Wood Science & Technology (AREA)
- Zoology (AREA)
- General Engineering & Computer Science (AREA)
- Biotechnology (AREA)
- Bioinformatics & Cheminformatics (AREA)
- Molecular Biology (AREA)
- Biomedical Technology (AREA)
- General Health & Medical Sciences (AREA)
- Microbiology (AREA)
- Biochemistry (AREA)
- Physics & Mathematics (AREA)
- Biophysics (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Analytical Chemistry (AREA)
- Bioinformatics & Computational Biology (AREA)
- Crystallography & Structural Chemistry (AREA)
- Plant Pathology (AREA)
- Immunology (AREA)
- Chemical Kinetics & Catalysis (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
- Enzymes And Modification Thereof (AREA)
- Toxicology (AREA)
Applications Claiming Priority (3)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US201562250900P | 2015-11-04 | 2015-11-04 | |
| US62/250,900 | 2015-11-04 | ||
| PCT/US2016/060576 WO2017079593A1 (en) | 2015-11-04 | 2016-11-04 | Combinatorial sets of nucleic acid barcodes for analysis of nucleic acids associated with single cells |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| CA3004310A1 true CA3004310A1 (en) | 2017-05-11 |
Family
ID=57396822
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| CA3004310A Pending CA3004310A1 (en) | 2015-11-04 | 2016-11-04 | Combinatorial sets of nucleic acid barcodes for analysis of nucleic acids associated with single cells |
Country Status (9)
| Country | Link |
|---|---|
| US (2) | US11098304B2 (enExample) |
| EP (1) | EP3371309B1 (enExample) |
| JP (1) | JP7064439B2 (enExample) |
| KR (1) | KR20180097536A (enExample) |
| CN (1) | CN108473984A (enExample) |
| AU (1) | AU2016348439B2 (enExample) |
| CA (1) | CA3004310A1 (enExample) |
| SG (1) | SG11201803646YA (enExample) |
| WO (1) | WO2017079593A1 (enExample) |
Families Citing this family (110)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US8835358B2 (en) | 2009-12-15 | 2014-09-16 | Cellular Research, Inc. | Digital counting of individual molecules by stochastic attachment of diverse labels |
| US11939634B2 (en) | 2010-05-18 | 2024-03-26 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US20190010543A1 (en) | 2010-05-18 | 2019-01-10 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US11322224B2 (en) | 2010-05-18 | 2022-05-03 | Natera, Inc. | Methods for non-invasive prenatal ploidy calling |
| US10316362B2 (en) | 2010-05-18 | 2019-06-11 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US12221653B2 (en) | 2010-05-18 | 2025-02-11 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US12152275B2 (en) | 2010-05-18 | 2024-11-26 | Natera, Inc. | Methods for non-invasive prenatal ploidy calling |
| US9677118B2 (en) | 2014-04-21 | 2017-06-13 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| BR112013020220B1 (pt) | 2011-02-09 | 2020-03-17 | Natera, Inc. | Método para determinar o estado de ploidia de um cromossomo em um feto em gestação |
| US11435358B2 (en) | 2011-06-23 | 2022-09-06 | Board Of Regents, The University Of Texas System | Single molecule peptide sequencing |
| CA2865575C (en) | 2012-02-27 | 2024-01-16 | Cellular Research, Inc. | Compositions and kits for molecular counting |
| US10752949B2 (en) | 2012-08-14 | 2020-08-25 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US10584381B2 (en) | 2012-08-14 | 2020-03-10 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US10323279B2 (en) | 2012-08-14 | 2019-06-18 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US9701998B2 (en) | 2012-12-14 | 2017-07-11 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| AU2013302756C1 (en) | 2012-08-14 | 2018-05-17 | 10X Genomics, Inc. | Microcapsule compositions and methods |
| US11591637B2 (en) | 2012-08-14 | 2023-02-28 | 10X Genomics, Inc. | Compositions and methods for sample processing |
| US9951386B2 (en) | 2014-06-26 | 2018-04-24 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US20140100126A1 (en) | 2012-08-17 | 2014-04-10 | Natera, Inc. | Method for Non-Invasive Prenatal Testing Using Parental Mosaicism Data |
| US10829816B2 (en) | 2012-11-19 | 2020-11-10 | Apton Biosystems, Inc. | Methods of analyte detection |
| CA2891939C (en) | 2012-11-19 | 2020-10-27 | Apton Biosystems, Inc. | Digital analysis of molecular analytes using single molecule detection |
| US10533221B2 (en) | 2012-12-14 | 2020-01-14 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| EP3567116A1 (en) | 2012-12-14 | 2019-11-13 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| BR112015019159A2 (pt) | 2013-02-08 | 2017-07-18 | 10X Genomics Inc | geração de código de barras de polinucleotídeos |
| CN110964796B (zh) | 2013-08-28 | 2024-04-05 | 贝克顿迪金森公司 | 大规模平行单细胞分析 |
| CN106413896B (zh) | 2014-04-10 | 2019-07-05 | 10X基因组学有限公司 | 用于封装和分割试剂的流体装置、系统和方法及其应用 |
| EP3134541B1 (en) | 2014-04-21 | 2020-08-19 | Natera, Inc. | Detecting copy number variations (cnv) of chromosomal segments in cancer |
| US20180173846A1 (en) | 2014-06-05 | 2018-06-21 | Natera, Inc. | Systems and Methods for Detection of Aneuploidy |
| IL286474B2 (en) | 2014-06-23 | 2023-11-01 | Massachusetts Gen Hospital | Genome-wide random identification of DSBS assessed by sequencing (guide-sequence) |
| US12312640B2 (en) | 2014-06-26 | 2025-05-27 | 10X Genomics, Inc. | Analysis of nucleic acid sequences |
| CN113249435B (zh) | 2014-06-26 | 2024-09-03 | 10X基因组学有限公司 | 分析来自单个细胞或细胞群体的核酸的方法 |
| JP2017522866A (ja) | 2014-06-26 | 2017-08-17 | 10エックス ジェノミクス, インコーポレイテッド | 核酸配列の分析 |
| SG11201705615UA (en) | 2015-01-12 | 2017-08-30 | 10X Genomics Inc | Processes and systems for preparing nucleic acid sequencing libraries and libraries prepared using same |
| US10697000B2 (en) | 2015-02-24 | 2020-06-30 | 10X Genomics, Inc. | Partition processing methods and systems |
| EP3262192B1 (en) | 2015-02-27 | 2020-09-16 | Becton, Dickinson and Company | Spatially addressable molecular barcoding |
| WO2016160844A2 (en) | 2015-03-30 | 2016-10-06 | Cellular Research, Inc. | Methods and compositions for combinatorial barcoding |
| WO2016172373A1 (en) | 2015-04-23 | 2016-10-27 | Cellular Research, Inc. | Methods and compositions for whole transcriptome amplification |
| US11479812B2 (en) | 2015-05-11 | 2022-10-25 | Natera, Inc. | Methods and compositions for determining ploidy |
| CN108026524A (zh) | 2015-09-11 | 2018-05-11 | 赛卢拉研究公司 | 用于核酸文库标准化的方法和组合物 |
| EP3347467B1 (en) | 2015-09-11 | 2021-06-23 | The General Hospital Corporation | Full interrogation of nuclease dsbs and sequencing (find-seq) |
| RU2760913C2 (ru) | 2016-04-15 | 2021-12-01 | Натера, Инк. | Способы выявления рака легкого |
| US10301677B2 (en) | 2016-05-25 | 2019-05-28 | Cellular Research, Inc. | Normalization of nucleic acid libraries |
| US10202641B2 (en) | 2016-05-31 | 2019-02-12 | Cellular Research, Inc. | Error correction in amplification of samples |
| US10640763B2 (en) | 2016-05-31 | 2020-05-05 | Cellular Research, Inc. | Molecular indexing of internal sequences |
| KR102638006B1 (ko) | 2016-09-26 | 2024-02-20 | 셀룰러 리서치, 인크. | 바코딩된 올리고뉴클레오티드 서열을 갖는 시약을 이용한 단백질 발현의 측정 |
| GB201618485D0 (en) | 2016-11-02 | 2016-12-14 | Ucl Business Plc | Method of detecting tumour recurrence |
| US10011870B2 (en) * | 2016-12-07 | 2018-07-03 | Natera, Inc. | Compositions and methods for identifying nucleic acid molecules |
| EP4029939B1 (en) | 2017-01-30 | 2023-06-28 | 10X Genomics, Inc. | Methods and systems for droplet-based single cell barcoding |
| US11319583B2 (en) | 2017-02-01 | 2022-05-03 | Becton, Dickinson And Company | Selective amplification using blocking oligonucleotides |
| CN114921537A (zh) | 2017-03-17 | 2022-08-19 | 雅普顿生物系统公司 | 测序和高分辨率成像 |
| MX2019013993A (es) * | 2017-05-23 | 2020-07-28 | Harvard College | Amplificación de etiquetado extremo múltiple de ácidos nucleicos. |
| US10844372B2 (en) | 2017-05-26 | 2020-11-24 | 10X Genomics, Inc. | Single cell analysis of transposase accessible chromatin |
| SG11201901822QA (en) | 2017-05-26 | 2019-03-28 | 10X Genomics Inc | Single cell analysis of transposase accessible chromatin |
| EP4345172A3 (en) | 2017-06-05 | 2024-07-03 | Becton, Dickinson and Company | Sample indexing for single cells |
| EP3672612A4 (en) | 2017-08-23 | 2021-09-29 | The General Hospital Corporation | GENETICALLY MODIFIED CRISPR-CAS9 NUCLEASES WITH MODIFIED PAM SPECIFICITY |
| US20200217850A1 (en) * | 2017-09-15 | 2020-07-09 | Apton Biosystems, Inc. | Heterogeneous single cell profiling using molecular barcoding |
| EP3694993A4 (en) | 2017-10-11 | 2021-10-13 | The General Hospital Corporation | SITE-SPECIFIC AND PARASITIC GENOMIC DESAMINATION DETECTION METHODS INDUCED BY BASIC EDITING TECHNOLOGIES |
| CN118126816A (zh) * | 2017-11-06 | 2024-06-04 | 伊鲁米那股份有限公司 | 核酸索引化技术 |
| EP3954782A1 (en) | 2017-11-15 | 2022-02-16 | 10X Genomics, Inc. | Functionalized gel beads |
| WO2019099908A1 (en) * | 2017-11-17 | 2019-05-23 | 10X Genomics, Inc. | Methods and systems for associating physical and genetic properties of biological particles |
| US10829815B2 (en) | 2017-11-17 | 2020-11-10 | 10X Genomics, Inc. | Methods and systems for associating physical and genetic properties of biological particles |
| US12084720B2 (en) | 2017-12-14 | 2024-09-10 | Natera, Inc. | Assessing graft suitability for transplantation |
| US11946095B2 (en) | 2017-12-19 | 2024-04-02 | Becton, Dickinson And Company | Particles associated with oligonucleotides |
| EP4324962A3 (en) | 2018-01-31 | 2024-05-08 | Bio-Rad Laboratories, Inc. | Methods and compositions for deconvoluting partition barcodes |
| WO2019161244A1 (en) | 2018-02-15 | 2019-08-22 | Natera, Inc. | Methods for isolating nucleic acids with size selection |
| WO2019191321A1 (en) * | 2018-03-28 | 2019-10-03 | 10X Genomics, Inc. | Nucleic acid enrichment within partitions |
| EP3775271B1 (en) | 2018-04-06 | 2025-03-12 | 10X Genomics, Inc. | Systems and methods for quality control in single cell processing |
| US11466313B2 (en) | 2018-04-13 | 2022-10-11 | The Board Of Trustees Of The Leland Stanford Junior University | Nucleic acid quantification using concentration-specific barcodes |
| US12024738B2 (en) | 2018-04-14 | 2024-07-02 | Natera, Inc. | Methods for cancer detection and monitoring |
| EP3781585A4 (en) | 2018-04-17 | 2022-01-26 | The General Hospital Corporation | SENSITIVE IN VITRO ASSAYS FOR SUBSTRATE AND SITE PREFERENCES OF NUCLEIC ACID BINDERS, MODIFIERS AND CLEAVATORS |
| EP4545647A3 (en) | 2018-05-03 | 2025-07-09 | Becton, Dickinson and Company | Molecular barcoding on opposite transcript ends |
| AU2019262048B2 (en) | 2018-05-03 | 2025-09-04 | Becton, Dickinson And Company | High throughput multiomics sample analysis |
| US12234509B2 (en) | 2018-07-03 | 2025-02-25 | Natera, Inc. | Methods for detection of donor-derived cell-free DNA |
| WO2020014586A1 (en) * | 2018-07-12 | 2020-01-16 | Board Of Regents, The University Of Texas System | Molecular neighborhood detection by oligonucleotides |
| JP7631187B2 (ja) | 2018-08-17 | 2025-02-18 | ジェネンテック, インコーポレイテッド | In vitroトランスサイトーシスアッセイ |
| US20200071691A1 (en) * | 2018-08-28 | 2020-03-05 | Cellular Research, Inc. | Sample multiplexing using carbohydrate-binding and membrane-permeable reagents |
| WO2020061237A1 (en) | 2018-09-19 | 2020-03-26 | Apton Biosystems, Inc. | Densely-packed analyte layers and detection methods |
| KR20210063379A (ko) * | 2018-09-24 | 2021-06-01 | 브리스톨-마이어스 스큅 컴퍼니 | 바코딩된 펩티드-mhc 복합체 및 그의 용도 |
| CN118853827A (zh) | 2018-10-01 | 2024-10-29 | 贝克顿迪金森公司 | 确定5’转录物序列 |
| AU2019358198A1 (en) | 2018-10-11 | 2021-05-27 | Berkeley Lights, Inc. | Systems and methods for identification of optimized protein production and kits therefor |
| CN112969789A (zh) | 2018-11-08 | 2021-06-15 | 贝克顿迪金森公司 | 使用随机引发的单细胞全转录组分析 |
| EP3894552A1 (en) | 2018-12-13 | 2021-10-20 | Becton, Dickinson and Company | Selective extension in single cell whole transcriptome analysis |
| MX2021007777A (es) * | 2019-01-07 | 2021-10-13 | Pivot Bio Inc | Ensayos de colonizacion de plantas mediante el uso de codigos de barras microbianos naturales. |
| EP3914728B1 (en) | 2019-01-23 | 2023-04-05 | Becton, Dickinson and Company | Oligonucleotides associated with antibodies |
| KR20210138017A (ko) * | 2019-02-11 | 2021-11-18 | 울티마 제노믹스, 인크. | 핵산 분석 방법 |
| CN113454234B (zh) | 2019-02-14 | 2025-03-18 | 贝克顿迪金森公司 | 杂合体靶向和全转录物组扩增 |
| US11920183B2 (en) | 2019-03-11 | 2024-03-05 | 10X Genomics, Inc. | Systems and methods for processing optically tagged beads |
| WO2020214642A1 (en) | 2019-04-19 | 2020-10-22 | Becton, Dickinson And Company | Methods of associating phenotypical data and single cell sequencing data |
| WO2020247950A1 (en) * | 2019-06-07 | 2020-12-10 | Bio-Rad Laboratories, Inc. | Multiple beads per droplet resolution |
| EP4004231B1 (en) | 2019-07-22 | 2025-11-12 | Becton, Dickinson and Company | Single cell chromatin immunoprecipitation sequencing assay |
| CN114729350A (zh) | 2019-11-08 | 2022-07-08 | 贝克顿迪金森公司 | 使用随机引发获得用于免疫组库测序的全长v(d)j信息 |
| WO2021128036A1 (zh) * | 2019-12-25 | 2021-07-01 | 苏州绘真生物科技有限公司 | 用于构建人单细胞tcr测序文库的试剂盒及其应用 |
| US11649497B2 (en) | 2020-01-13 | 2023-05-16 | Becton, Dickinson And Company | Methods and compositions for quantitation of proteins and RNA |
| CA3167722A1 (en) * | 2020-01-13 | 2021-07-22 | Fluent Biosciences Inc. | Reverse transcription during template emulsification |
| EP4097228B1 (en) | 2020-01-29 | 2024-08-14 | Becton, Dickinson and Company | Barcoded wells for spatial mapping of single cells through sequencing |
| US20240263227A1 (en) * | 2020-02-17 | 2024-08-08 | Universal Sequencing Technology Corporation | Methods of barcoding nucleic acid for detection and sequencing |
| WO2021173719A1 (en) | 2020-02-25 | 2021-09-02 | Becton, Dickinson And Company | Bi-specific probes to enable the use of single-cell samples as single color compensation control |
| EP4150118A1 (en) | 2020-05-14 | 2023-03-22 | Becton Dickinson and Company | Primers for immune repertoire profiling |
| US20230203600A1 (en) * | 2020-05-29 | 2023-06-29 | Riken | Method for treating cell population and method for analyzing genes included in cell population |
| EP4407030B1 (en) | 2020-06-02 | 2025-12-17 | Becton, Dickinson and Company | Oligonucleotides and beads for 5 prime gene expression assay |
| US11932901B2 (en) | 2020-07-13 | 2024-03-19 | Becton, Dickinson And Company | Target enrichment using nucleic acid probes for scRNAseq |
| CN116194589A (zh) | 2020-07-31 | 2023-05-30 | 贝克顿迪金森公司 | 用于转座酶可及染色质的单细胞测定 |
| WO2022109343A1 (en) | 2020-11-20 | 2022-05-27 | Becton, Dickinson And Company | Profiling of highly expressed and lowly expressed proteins |
| US12392771B2 (en) | 2020-12-15 | 2025-08-19 | Becton, Dickinson And Company | Single cell secretome analysis |
| WO2022221853A1 (en) * | 2021-04-13 | 2022-10-20 | Elegen Corp. | Methods and compositions for cell-free cloning |
| WO2023048300A1 (ja) * | 2021-09-27 | 2023-03-30 | 国立大学法人東京大学 | 細胞標識分子及び細胞の分析方法 |
| GB202204903D0 (en) * | 2022-04-04 | 2022-05-18 | Univ Oxford Innovation Ltd | chimeric artefact detectioin method |
| GB202211182D0 (en) * | 2022-08-01 | 2022-09-14 | Univ Oxford Innovation Ltd | Bead-hashing |
| US20240052419A1 (en) * | 2022-08-10 | 2024-02-15 | Guardant Health, Inc. | Methods and systems for detecting genetic variants |
| WO2025166174A1 (en) * | 2024-02-01 | 2025-08-07 | Bio-Rad Laboratories, Inc. | Methods and compositions for bead deconvolution |
Family Cites Families (39)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US5643722A (en) | 1994-05-11 | 1997-07-01 | Trustees Of Boston University | Methods for the detection and isolation of proteins |
| US5962271A (en) | 1996-01-03 | 1999-10-05 | Cloutech Laboratories, Inc. | Methods and compositions for generating full-length cDNA having arbitrary nucleotide sequence at the 3'-end |
| JP3746766B2 (ja) | 2001-02-23 | 2006-02-15 | 独立行政法人科学技術振興機構 | エマルションの製造方法およびその装置 |
| US20030175749A1 (en) | 2001-12-08 | 2003-09-18 | Jong-Yoon Chun | Annealing control primer and its uses |
| US8741192B2 (en) | 2004-03-23 | 2014-06-03 | Japan Science And Technology Agency | Method and device for producing micro-droplets |
| EP1924704B1 (en) * | 2005-08-02 | 2011-05-25 | Rubicon Genomics, Inc. | Compositions and methods for processing and amplification of dna, including using multiple enzymes in a single reaction |
| DK2171088T3 (en) * | 2007-06-19 | 2016-01-25 | Stratos Genomics Inc | Nucleic acid sequencing in a high yield by expansion |
| EP2313530B1 (en) | 2008-06-18 | 2016-05-18 | Riken | A method of manufacturing a mixture of amplified double-stranded nucleic acids comprising unknown sequence |
| EP3998346A1 (en) | 2009-03-30 | 2022-05-18 | Illumina, Inc. | Gene expression analysis in single cells |
| EP2414547B1 (en) * | 2009-04-02 | 2014-03-12 | Fluidigm Corporation | Multi-primer amplification method for barcoding of target nucleic acids |
| CN101864477A (zh) * | 2009-04-15 | 2010-10-20 | 上海聚类生物科技有限公司 | 一种利用高通量测序单通道复用技术进行microRNA表达谱测定的方法 |
| FI3425062T3 (fi) * | 2010-06-09 | 2023-09-01 | Keygene Nv | Kombinatorisia sekvenssiviivakoodeja suuren suorituskyvyn seulontaa varten |
| DK2625320T3 (da) * | 2010-10-08 | 2019-07-01 | Harvard College | High-throughput enkeltcellestregkodning |
| DK2652155T3 (en) | 2010-12-16 | 2017-02-13 | Gigagen Inc | Methods for Massive Parallel Analysis of Nucleic Acids in Single Cells |
| EP3421591B1 (en) * | 2011-04-28 | 2023-09-27 | The Board of Trustees of the Leland Stanford Junior University | Identification of polynucleotides associated with a sample |
| SG194745A1 (en) * | 2011-05-20 | 2013-12-30 | Fluidigm Corp | Nucleic acid encoding reactions |
| JP2015500648A (ja) * | 2011-12-16 | 2015-01-08 | ターゲットジーン バイオテクノロジーズ リミテッド | 所定の標的核酸配列を修飾するための組成物及び方法 |
| EP2809795B1 (en) * | 2012-02-01 | 2019-09-18 | SGI-DNA, Inc. | Materials and methods for the synthesis of error-minimized nucleic acid molecules |
| CA2869481A1 (en) * | 2012-04-13 | 2013-10-17 | Sequenta, Inc. | Detection and quantitation of sample contamination in immune repertoire analysis |
| JP2015523087A (ja) * | 2012-07-24 | 2015-08-13 | シーケンタ インコーポレイテッド | 配列タグを用いる単一細胞分析 |
| EP2912197B1 (en) | 2012-10-24 | 2019-08-07 | Takara Bio USA, Inc. | Template switch-based methods for producing a product nucleic acid |
| CA2889862C (en) * | 2012-11-05 | 2021-02-16 | Rubicon Genomics, Inc. | Barcoding nucleic acids |
| US10119134B2 (en) * | 2013-03-15 | 2018-11-06 | Abvitro Llc | Single cell bar-coding for antibody discovery |
| SG11201506991VA (en) * | 2013-03-15 | 2015-10-29 | Adaptive Biotechnologies Corp | Uniquely tagged rearranged adaptive immune receptor genes in a complex gene set |
| WO2014201273A1 (en) * | 2013-06-12 | 2014-12-18 | The Broad Institute, Inc. | High-throughput rna-seq |
| JP6563912B2 (ja) | 2013-06-27 | 2019-08-21 | テンエックス・ジェノミクス・インコーポレイテッド | サンプル処理のための組成物及び方法 |
| US9708657B2 (en) * | 2013-07-01 | 2017-07-18 | Adaptive Biotechnologies Corp. | Method for generating clonotype profiles using sequence tags |
| US10266894B2 (en) | 2013-08-23 | 2019-04-23 | Ludwig Institute For Cancer Research Ltd | Methods and compositions for cDNA synthesis and single-cell transcriptome profiling using template switching reaction |
| CN110964796B (zh) | 2013-08-28 | 2024-04-05 | 贝克顿迪金森公司 | 大规模平行单细胞分析 |
| EP3058104B1 (en) | 2013-10-17 | 2020-08-19 | Takara Bio USA, Inc. | Methods for adding adapters to nucleic acids and compositions for practicing the same |
| US9719136B2 (en) | 2013-12-17 | 2017-08-01 | Takara Bio Usa, Inc. | Methods for adding adapters to nucleic acids and compositions for practicing the same |
| ES2912183T3 (es) * | 2013-12-30 | 2022-05-24 | Atreca Inc | Análisis de ácidos nucleicos asociados a células individuales utilizando códigos de barras de ácidos nucleicos |
| LT3456846T (lt) * | 2014-04-21 | 2022-09-12 | President And Fellows Of Harvard College | Nukleorūgšties unikalios sekos įvedimo sistemos ir būdai |
| WO2015173402A1 (en) | 2014-05-14 | 2015-11-19 | Ruprecht-Karls-Universität Heidelberg | Synthesis of double-stranded nucleic acids |
| CN113249435B (zh) * | 2014-06-26 | 2024-09-03 | 10X基因组学有限公司 | 分析来自单个细胞或细胞群体的核酸的方法 |
| SG10201911069WA (en) * | 2014-09-15 | 2020-01-30 | Abvitro Llc | High-throughput nucleotide library sequencing |
| WO2016138490A1 (en) * | 2015-02-27 | 2016-09-01 | Fluidigm Corporation | Single-cell nucleic acids for high-throughput studies |
| WO2016160844A2 (en) | 2015-03-30 | 2016-10-06 | Cellular Research, Inc. | Methods and compositions for combinatorial barcoding |
| WO2016172373A1 (en) * | 2015-04-23 | 2016-10-27 | Cellular Research, Inc. | Methods and compositions for whole transcriptome amplification |
-
2016
- 2016-11-04 KR KR1020187015881A patent/KR20180097536A/ko not_active Ceased
- 2016-11-04 US US15/772,723 patent/US11098304B2/en not_active Expired - Fee Related
- 2016-11-04 SG SG11201803646YA patent/SG11201803646YA/en unknown
- 2016-11-04 CN CN201680077294.5A patent/CN108473984A/zh active Pending
- 2016-11-04 JP JP2018543062A patent/JP7064439B2/ja active Active
- 2016-11-04 WO PCT/US2016/060576 patent/WO2017079593A1/en not_active Ceased
- 2016-11-04 CA CA3004310A patent/CA3004310A1/en active Pending
- 2016-11-04 AU AU2016348439A patent/AU2016348439B2/en active Active
- 2016-11-04 EP EP16801644.2A patent/EP3371309B1/en active Active
-
2021
- 2021-07-28 US US17/443,909 patent/US20210380974A1/en not_active Abandoned
Also Published As
| Publication number | Publication date |
|---|---|
| WO2017079593A1 (en) | 2017-05-11 |
| JP7064439B2 (ja) | 2022-05-10 |
| EP3371309A1 (en) | 2018-09-12 |
| AU2016348439B2 (en) | 2023-03-09 |
| US20210380974A1 (en) | 2021-12-09 |
| EP3371309B1 (en) | 2023-07-05 |
| SG11201803646YA (en) | 2018-05-30 |
| CN108473984A (zh) | 2018-08-31 |
| AU2016348439A1 (en) | 2018-05-10 |
| KR20180097536A (ko) | 2018-08-31 |
| US20180320171A1 (en) | 2018-11-08 |
| JP2018538006A (ja) | 2018-12-27 |
| US11098304B2 (en) | 2021-08-24 |
Similar Documents
| Publication | Publication Date | Title |
|---|---|---|
| US20210380974A1 (en) | Combinatorial sets of nucleic acid barcodes for analysis of nucleic acids associated with single cells | |
| US11359239B2 (en) | Methods and systems for processing polynucleotides | |
| US20230087127A1 (en) | Methods and systems for processing polynucleotides | |
| US10273541B2 (en) | Methods and systems for processing polynucleotides | |
| US10337061B2 (en) | Methods and systems for processing polynucleotides | |
| CN108350499B (zh) | 可转化标记组合物、方法及结合其的过程 | |
| CN110592182B (zh) | 用于样品处理的组合物和方法 | |
| EP4106769A1 (en) | Methods of barcoding nucleic acid for detection and sequencing | |
| US20240401030A1 (en) | Versatile amplicon single-cell droplet sequencing-based shotgun screening platform to accelerate functional genomics | |
| CN111295443A (zh) | 基于转座酶的基因组分析 | |
| EP3980537A2 (en) | Methods of barcoding nucleic acid for detection and sequencing | |
| CN120417997A (zh) | 用于跟踪分区中的条形码的方法和组合物 | |
| US20150133310A1 (en) | Nucleic acid sequencing systems and methods | |
| US12312640B2 (en) | Analysis of nucleic acid sequences | |
| CN120693411A (zh) | 扩增互补dna链的方法 |
Legal Events
| Date | Code | Title | Description |
|---|---|---|---|
| EEER | Examination request |
Effective date: 20211014 |
|
| EEER | Examination request |
Effective date: 20211014 |
|
| EEER | Examination request |
Effective date: 20211014 |
|
| EEER | Examination request |
Effective date: 20211014 |
|
| EEER | Examination request |
Effective date: 20211014 |
|
| EEER | Examination request |
Effective date: 20211014 |