CN1435493A - Solid phase nucleic acid detection probe and preparing method thereof - Google Patents

Solid phase nucleic acid detection probe and preparing method thereof Download PDF

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Publication number
CN1435493A
CN1435493A CN 03112923 CN03112923A CN1435493A CN 1435493 A CN1435493 A CN 1435493A CN 03112923 CN03112923 CN 03112923 CN 03112923 A CN03112923 A CN 03112923A CN 1435493 A CN1435493 A CN 1435493A
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oligonucleotide probe
probe
fluorescent quenching
quenching material
solid substrate
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CN1206368C (en
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刘全俊
陆祖宏
肖鹏峰
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Southeast University
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Southeast University
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Abstract

An immobilized nucleic acid detecting probe is a non-labeling oligonucleotide probe fixed to a solid substrate. The fluorescence quenching material is fixed to said solid substrate via arm moleculae. The oligonucleotide probe composed of fluorescent group, and the stem and ring of the probe is prepared on the surface of said fluorescence quenching material. The one end of said probe is fixed to the surface of said fluorescence quenching material and its another end is near the base labeled by fluorescence group.

Description

Immobilization detection of nucleic acids probe and preparation method thereof
One, technical field
The present invention relates to a kind of micro-array chip that is fixed on oligonucleotide probe on the solid substrate and makes of this method, is a kind of cold oligonucleotide probe that detects nucleic acid sequence information.
Two, background technology
Along with going deep into of genome research, from the difference of gene level understanding life, disease takes place, the rule of development, and the interaction of medicine and life entity will become possibility.The high throughput testing of nucleic acid sequence information and analytical technology will become one of core technology of life sciences such as medical science.People need be developed the detection method of high-throughput, accurate, low-cost gene information.Recently, biochip technology more and more is subject to people's attention.But biochip technology remains in some problems at present, influences its application in biology and clinical medicine.1) testing process complexity.The sample DNA that extracts need increase, and mixes fluorescent marker.In this process,, influence the reliability that detects because of the labeling effciency problem.2) though the non-marked that has some technology can carry out gene order at present detect, all not really ripe.Therefore, can to carry out the biochip technology cheaply that non-marked detects to detected gene order be the key that realizes biochip a large amount of practical applications in fields such as medical science and life science in development.3) the single base mismatch detection still is a difficult problem at present, and main method is still measured the sequence of nucleic acid, measures not accurate enough convenience for the transgenation of heterozygosity.(4) detection method of primer specificity still can not be used for the detection of heterozygosity transgenation.
Three, summary of the invention
1, goal of the invention:
The purpose of this invention is to provide immobilization detection of nucleic acids probe non-a kind of mark, that hang down use cost and high reliability ground detection nucleotide sequence gene chip and preparation method thereof.
2, technical scheme:
The present invention is a kind of immobilization detection of nucleic acids probe, on solid substrate, be fixed with the fluorescent quenching material by arm molecule, preparing on the fluorescent quenching material surface has by fluorophor, the stipe part of oligonucleotide probe molecule, the oligonucleotide probe that the ring portion of oligonucleotide probe is formed, one end of oligonucleotide probe is fixed on the fluorescent quenching material surface, near the other end of oligonucleotide probe base is marked with fluorophor, it is complementary sequence that near the oligonucleotide probe two ends sequence has 3 to 15 bases respectively, can make near the sequence in these oligonucleotide probe two ends can form hybridization, the base sequence of oligonucleotide probe middle portion is the complementary sequence of detected nucleotide sequence, oligonucleotide probe is the oligonucleotide probe array that multiple probe is formed, it is gene chip, the immobilized oligonucleotide probe is a thymus nucleic acid, or Yeast Nucleic Acid, peptide nucleic acid(PNA) or their combination, fluorescent quenching material on the solid substrate of immobilized oligonucleotide probe can be a nano particle, comprises metal nanoparticle, metal oxide nanoparticles, the metal-salt nano particle; Also can be macromolecular material and the composite high-molecular material that includes the fluorescent quenching group, fluorescent quenching material on the solid substrate of immobilized oligonucleotide probe can be direct covalently bound fluorescent quenching group on solid substrate, be fixed with the solid substrate of nano particle, its material is a glass, silicon, pottery, plastics, cellulose nitrate, a kind of in nylon or the rubber, method is: a, with difunctional active agent by chemical reaction active group on the solid substrate surface bond, it is arm molecule, b, has on the solid substrate of active group fixedly fluorescent quenching material, c, surface at the fluorescent quenching material is modified with the agent of dual-functional group group chemistry degree, form arm molecule, d, one of the oligonucleotide probe of the specific nucleic acid sequence that includes at least one fluorescence chromophoric group that solid state chemistry is synthetic good terminates on the fluorescent quenching material, make the preparation of fluorescent quenching material surface go up oligonucleotide probe, the method for preparing oligonucleotide probe on the fluorescent quenching material surface is an in-situ synthesis, promptly directly at fluorescent quenching material surface chemical synthesising DNA probe, 3 ' end of oligonucleotide probe is fixed on the fluorescent quenching material, the method that on the fluorescent quenching material surface, prepares oligonucleotide probe be with chemical process will be in advance synthetic oligonucleotide probe overall fixed on the fluorescent quenching material, oligonucleotide probe can be whole original position synthetic, also can be that the part original position is synthetic, connect by chemical group then and form complete oligonucleotide probe, the method that on solid substrate, prepares the nm gold particles film be to use vapour deposition method with material evaporations such as metals on the solid substrate surface, form compact arranged nanometer particle film.
The present invention is by the method for chemistry or physics; nano-metal particle is fixed on the solid substrate; the perhaps metallic film of evaporation one deck nanometer grade thickness on solid substrate; modify chemical group at nano level metallic particles or film surface, synthetic or other original position synthetic method synthesizes nucleic acid at the solid phase substrate surface by the molecular seal original position then.When synthetic last several base, a synthetic amino or fluorescently-labeled nucleic acid monomer directly synthesized on nucleic acid chains on base therein selectively.Because it is complementary that the probe of the detection usefulness of design has base sequence at its two ends; after synthetic the finishing; chip can be formed secondary structure in damping fluid; at this moment; nano-metal particle or film can make the fluorophor emitted fluorescence cancellation of modifying on the nucleic acid effectively, and probe can not detect fluorescence.But after the identification of detected target gene and probe, make fluorophor away from nano-metal particle behind target gene and the probe hybridization, thereby fluorophor can be excited and detect the fluorescence that it sends.
If this kind stationary probe method is used for the probe of the tested nucleotide sequence of difference is constituted microarray, promptly constitutes a kind of original position synthetic non-marked gene chip micro-array chip.The preparation method of this novel immobilization nucleic acid probe is as follows: nano-metal particle is fixed on the material of solid phase by arm molecule, two or more mark fluorescent oligonucleotide probe of chemosynthesis is connected on the solid phase carrier by covalent bonds or physical adsorption.This probe comprises one or more fluorescence molecule groups, because transmission ofenergy or the effect of electronic cloud eclipsed, the fluorescent signal of fluorescence molecule group is by the cancellation of nano-metal particle institute; The fixed label probe can be that strand or oneself form various ways such as secondary structure, can constitute micro-array chip.
Its principle is to introduce nano-metal particle and fluorescence chromophoric group in nucleic acid probe, by under tested nucleic acid and interaction probe, realizes the non-marked of tested nucleotide sequence (target sequence) in the biological sample is measured.The non-marked that this novel nucleic acid probe and micro-array chip thereof can be used for bio-science and medical field amplifying nucleic acid sequence detects.
3, technique effect:
Immobilization nucleic acid probe that the present invention proposes and preparation method thereof has following characteristics: need not be carried out fluorescent mark or isotopic labeling by cls gene; Can improve the mispairing recognition capability of single base greatly by by cls gene and the hybridization of being at war with property of fixed probe; Probe can directly be fixed on the solid carrier by multi-form, form the micro-array chip of higher density, utilize the space to offer an explanation to distinguish different detection site, realize that high-flux parallel detects, avoided the selection of fluorescence dye in the existing quantitative PCR instrument to be subject to the problem of excitation wavelength range; For not with the probe of target molecule hybridization, the fluorescence of its fluorescence molecule group can be by the efficient cancellation of nano-metal particle, so the fluorescence background of entire chip is very low, detection highly sensitive; Can carry out the detection by quantitative of target gene; By making up micro-fluid chip, the automatization that realizes whole testing process can be arranged.
Compare with prior art, this method has following advantage: utilize the nucleic acid hybridization principle of dynamics, detected nucleic acid competitiveness and the fluorophor labeling nucleic acid probe hybridization that is fixed on the nano-metal particle, have good signal-to-noise, successfully solved the technical barrier that single base mismatch detects.Simultaneously, this detection method non-marked that can realize detecting sample detects and (can realize that sample high-throughput, cold automatization detect.) significantly reduced and detected the required time, and have the potentiality that realize micro-total analysis etc.Not only shortened Diagnostic Time greatly, and improved the accuracy that single base mismatch detects greatly, reduced the detection cost, the detection of especially can tumour relevant single base mismatch polymorphism.
The present invention proposes immobilization nucleic acid probe and micro-array chip thereof, and genome times afterwards comprehensively non-marked, real-time, high-throughout nucleotide sequence are detected, and particularly single base polymorphisms detects, and oncogene polymorphism detection etc. all has significant application value.
Four, description of drawings
Fig. 1 is the structural representation that oligonucleotide probe is synthesized or fixed on the nm gold particles surface on the solid substrate 1.
Fig. 2 is on the solid substrate 1 behind fluorescent quenching material 3 surperficial synthetic or fixed oligonucleotide probe and the detected nucleic acid hybridization, and the fluorophor 5 on the oligonucleotide probe sends the synoptic diagram of fluorescence away from fluorescent quenching material 3 surfaces after the irradiation of Stimulated Light.
Have among the above figure: solid substrate 1, arm molecule 2,4, fluorescent quenching material 3, fluorophor 5, the stipe part 6 of oligonucleotide probe molecule, the ring portion 7 of oligonucleotide probe, tested nucleic acid molecule 8.
Five, embodiment
The present invention is a kind of immobilization detection of nucleic acids probe, on solid substrate 1, be fixed with fluorescent quenching material 3 by arm molecule 2, preparing on fluorescent quenching material 3 surfaces has by fluorophor 5, the stipe part 6 of oligonucleotide probe molecule, the oligonucleotide probe that the ring portion 7 of oligonucleotide probe is formed, one end of oligonucleotide probe is fixed on fluorescent quenching material 3 surfaces, near the other end of oligonucleotide probe base is marked with fluorophor 5, it is complementary sequence that near the oligonucleotide probe two ends sequence has 3 to 15 bases respectively, can make near the sequence these oligonucleotide probe two ends can form hybridization, the base sequence of oligonucleotide probe middle portion is the complementary sequence of detected nucleotide sequence.By after a plurality of these type of probe combinations in same device, promptly constitute a kind of non-marked gene chip.
On solid substrate 1, be fixed with fluorescent quenching material 3 by arm molecule 2, preparing on fluorescent quenching material 3 surfaces has by fluorophor 5, the stipe part 6 of oligonucleotide probe molecule, the oligonucleotide probe that the ring portion 7 of oligonucleotide probe is formed, one end of oligonucleotide probe is fixed on fluorescent quenching material 3 surfaces, near the other end of oligonucleotide probe base is marked with fluorophor 5, it is complementary sequence that near the oligonucleotide probe two ends sequence has 3 to 15 bases respectively, can make near the sequence these oligonucleotide probe two ends can form hybridization, the base sequence of oligonucleotide probe middle portion is the mutual row of detected nucleotide sequence.
1. the preparation of solid substrate: the material requirements surface that is used for fixing nano particle has can be modified chemical active radical, good optical character and have certain stability.With sheet glass (glass slides), silicon chip (silicon chip), polystyrene (polystyrene), polypropylene (polypropylene) or polycarbonate (polycarbonate) etc. is common used material;
2. the activation of solid substrate is with synthetic: with difunctional active agent being arranged by chemical reaction active group on the surface bond of carrier, so that with corresponding aglucon covalent attachment, formation has the affiliation carrier of different biologic specificities, is used for fixing different nucleic acid probes.
3. fluorescent quenching material: the fluorescent quenching material with the immobilization nucleic acid probe of the present invention that fixes can be a nano-metal particle, as nm gold particles, and nano-Ag particles, its surface is modified with the bifunctional group chemical reagent; Also can be organic molecule or the composite high-molecular material that includes the fluorescent quenching group.
4. the preparation of immobilization nucleic acid probe: the oligonucleotide probe that adopts the synthetic fluorescence chromophoric group specific nucleic acid sequence that includes at least one that designs of commercialization solid state chemistry synthetic method; The method for preparing nucleic acid probe also can be to adopt in-situ synthesis directly to carry out the synthetic and fluorescent mark of nucleic acid on the fluorescent quenching material.
5. probe is fixing: the synthetic good probe of solid state chemistry is transferred to the solid substrate surface by modes such as machines, is connected with solid substrate under proper condition.Each point includes two kinds at least and uses different fluorescently-labeled probes respectively.
6. hybridization and detection: add suitable ion and damping fluid etc. in tested systems, target gene and immobilization probe of the present invention carry out hybridization, endonuclease reaction or amplified reaction.Corresponding reaction system is carried out the detection of fluorescent signal, analyze its result, obtain detected gene information by corresponding software.
Embodiment one, original position synthetic non-marked gene chip
1. slide cleans: soak slide with washing lotion and spend the night, wash down, used the alkali alcohol solution dipping again two hours, after distilled water washed down, nitrogen dried up standby.
2. slide is modified: get the edulcoration slide, soaked 5 minutes in the acetone soln of triethoxy aminosilane, clean, baking is 40 minutes under 100 degree, and glutaraldehyde solution soaked after 2 hours, and clean nitrogen dries up.
3. nanometer gold is fixed: the nano-Au solution immersion slide of modifying with mercaptoethylamine spends the night, and clean nitrogen dries up.
4. oligonucleotide probe is synthetic: carry out nucleotide sequence with above-mentioned slide in the anhydrous glove box of anaerobic and synthesize, carry out multiple sequence with the molecular seal method and synthesize, make chip, wherein last base is to have fluorescein-labeled nucleic acid monomer, therefore, the chip of making mark fluorescein.
Embodiment two, the fixedly making non-marked of synthetic oligonucleotide probe gene chip
1. slide cleans: soak slide with washing lotion and spend the night, wash down, used the alkali alcohol solution dipping again two hours, after distilled water washed down, nitrogen dried up standby.
2. slide is modified: get the edulcoration slide, soaked 5 minutes in the acetone soln of triethoxy aminosilane, clean, baking is 40 minutes under 100 degree, and glutaraldehyde solution soaked after 2 hours, and clean nitrogen dries up.
3. nanometer gold is fixed: the nano-Au solution immersion slide of modifying with mercaptoethylamine spends the night, and clean nitrogen dries up.
4. oligonucleotide probe is synthetic: synthetic with ordinary method, at a terminal modified amino of oligonucleotide probe, modified fluorescein at the other end.
5. chip manufacturing: be fixed on the slide of having fixed nanometer gold with point sample method synthetic oligonucleotide probe.
Embodiment three nano-Au films non-marked gene chips
1. slide cleans: soak slide with washing lotion and spend the night, wash down, used the alkali alcohol solution dipping again two hours, after distilled water washed down, nitrogen dried up standby.
2. the making of nano-Au films: be equipped with the gold nano film with chemical solid precipitation legal system.
3. oligonucleotide probe is synthetic: carry out nucleotide sequence with above-mentioned slide in the anhydrous glove box of anaerobic and synthesize, carry out multiple sequence with the molecular seal method and synthesize, make chip, wherein last base is to have fluorescein-labeled nucleic acid monomer, therefore, the chip of making mark fluorescein.

Claims (10)

1, a kind of immobilization detection of nucleic acids probe, it is characterized in that upward being fixed with fluorescent quenching material (3) by arm molecule (2) at solid substrate (1), preparing on fluorescent quenching material (3) surface has by fluorophor (5), the stipe part of oligonucleotide probe molecule (6), the oligonucleotide probe that the ring portion of oligonucleotide probe (7) is formed, one end of oligonucleotide probe is fixed on fluorescent quenching material (3) surface, near the other end of oligonucleotide probe base is marked with fluorophor (5), it is complementary sequence that near the oligonucleotide probe two ends sequence has 3 to 15 bases respectively, can make near the sequence these oligonucleotide probe two ends can form hybridization, the base sequence of oligonucleotide probe middle portion is the complementary sequence of detected nucleotide sequence.
2, immobilization detection of nucleic acids probe according to claim 1 is characterized in that oligonucleotide probe is the oligonucleotide probe array that multiple probe is formed, i.e. gene chip, Gu
Surely changing oligonucleotide probe is thymus nucleic acid, or Yeast Nucleic Acid, peptide nucleic acid(PNA) or
Their combination.
3, immobilization detection of nucleic acids probe according to claim 1 and 2 is characterized in that
Fluorescent quenching material (3) on the solid substrate of immobilized oligonucleotide probe (1) can
Be nano particle, comprise metal nanoparticle, metal oxide nanoparticles, metal-salt
Nano particle; Also can be organic molecule or the compound high score that includes the fluorescent quenching group
Sub-material.
4, immobilization detection of nucleic acids probe according to claim 1 and 2 is characterized in that:
Fluorescent quenching material (3) on the solid substrate of immobilized oligonucleotide probe (1) can
It is direct covalently bound fluorescent quenching group on solid substrate (1).
5, according to claim 1 and 2 described immobilization detection of nucleic acids probes, it is characterized in that
Be fixed with the solid substrate (1) of nano particle, its material is glass, silicon, pottery, moulds
A kind of in material, cellulose nitrate, nylon or the rubber.
6, a kind of preparation method of immobilization detection of nucleic acids probe, its characteristic is that method is: a,
Active on solid substrate (1) surface bond with difunctional active agent by chemical reaction
Group, i.e. arm molecule (2), has on the solid substrate of active group (1) at b
Fixing fluorescent quenching material (3), c, on the surface of fluorescent quenching material (3) with two merits
Can group the agent of chemistry degree modify formation arm molecule (4), d, with solid state chemistry
Widow's nuclear of the synthetic specific nucleic acid sequence that includes at least one fluorescence chromophoric group well
One of thuja acid probe terminates on the fluorescent quenching material (3), makes fluorescent quenching material (3)
Oligonucleotide probe on the surface preparation.
7, the preparation method of immobilization detection of nucleic acids probe according to claim 6, its spy
It is former levying the method that is to prepare oligonucleotide probe on fluorescent quenching material (3) surface
The position synthesis method, promptly directly at fluorescent quenching material (3) surface chemistry synthesized dna probe,
3 ' end of oligonucleotide probe is fixed on the fluorescent quenching material (3).
8, the preparation method of immobilization detection of nucleic acids probe according to claim 6, its spy
Levying the method that is to prepare oligonucleotide probe on fluorescent quenching material (3) surface is to use
Chemical process will be in advance synthetic oligonucleotide probe overall fixed at the fluorescent quenching material
(3) on.
9, the preparation method of immobilization detection of nucleic acids probe according to claim 6, its spy
Levying and be that oligonucleotide probe can be whole original position synthetic, also can be the part original position
Synthetic, then by the complete oligonucleotide probe of chemical group connection formation.
10, the preparation method of immobilization detection of nucleic acids probe according to claim 6, its spy
Levy and be that going up the method for preparing the nm gold particles film at solid substrate (1) is to use evaporation
Method on solid substrate (1) surface, forms compact arranged nanometer with material evaporations such as metals
Particle film.
CN 03112923 2003-03-05 2003-03-05 Solid phase nucleic acid detection probe and preparing method thereof Expired - Fee Related CN1206368C (en)

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Cited By (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN101666805A (en) * 2009-07-15 2010-03-10 苏州纳米技术与纳米仿生研究所 Method for preparing specific protein detection chip
CN102072955A (en) * 2010-11-05 2011-05-25 苏州大学 Preparation method of modified porous plate
CN102575988A (en) * 2009-07-07 2012-07-11 拓克西密特有限公司 Fluorescent polymers and methods for solid-phase extraction
CN101942516B (en) * 2006-06-28 2012-09-26 邓兴旺 Method for detecting specific nucleotide sequence using visual film sensor chip
CN104109712A (en) * 2004-02-18 2014-10-22 克罗莫塞尔公司 Methods and materials using signaling probes
CN106119344A (en) * 2016-06-20 2016-11-16 清华大学 A kind of combined with fluorescent intensity and the nano-probe of fluorescence polarization detection DNA
CN110726840A (en) * 2019-11-29 2020-01-24 中山大学 DNA-two-dimensional material array sensor, microorganism detection kit, microorganism detection method and antibacterial drug classification method

Cited By (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN104109712A (en) * 2004-02-18 2014-10-22 克罗莫塞尔公司 Methods and materials using signaling probes
CN101942516B (en) * 2006-06-28 2012-09-26 邓兴旺 Method for detecting specific nucleotide sequence using visual film sensor chip
CN102575988A (en) * 2009-07-07 2012-07-11 拓克西密特有限公司 Fluorescent polymers and methods for solid-phase extraction
CN101666805A (en) * 2009-07-15 2010-03-10 苏州纳米技术与纳米仿生研究所 Method for preparing specific protein detection chip
CN102072955A (en) * 2010-11-05 2011-05-25 苏州大学 Preparation method of modified porous plate
CN102072955B (en) * 2010-11-05 2013-08-07 苏州大学 Preparation method of modified porous plate
CN106119344A (en) * 2016-06-20 2016-11-16 清华大学 A kind of combined with fluorescent intensity and the nano-probe of fluorescence polarization detection DNA
CN106119344B (en) * 2016-06-20 2020-06-09 清华大学 Nano probe for detecting DNA by combining fluorescence intensity and fluorescence polarization
CN110726840A (en) * 2019-11-29 2020-01-24 中山大学 DNA-two-dimensional material array sensor, microorganism detection kit, microorganism detection method and antibacterial drug classification method

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