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公开(公告)号：US10467749B2
公开(公告)日：2019-11-05
申请号：US15725552
申请日：2017-10-05
Applicant: DIRECT GENOMICS CO., LTD.
Inventor： Weibin Xu , Huan Jin , Qin Yan , Zefei Jiang , Zhiliang Zhou
Abstract: The present disclosure provides a method and a system for processing an image. The method includes: an image pre-processing step, including analyzing an image input to be processed so as to obtain a first image; and a spot detecting step, including analyzing the first image so as to compute a spot determining threshold; analyzing the first image so as to acquire a candidate pixel spot, and judging whether the candidate pixel spot is the spot according to the spot determining threshold; computing a sub-pixel center coordinate of the spot and an intensity value of the sub-pixel center coordinate if yes; and discarding the candidate pixel spot if no. According to the method, the image is denoised in the image pre-processing step, such that a calculation in the spot detecting step may be reduced. In addition, the accuracy of determining the image spot may be improved.
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公开(公告)号：US20180195117A1
公开(公告)日：2018-07-12
申请号：US15890028
申请日：2018-02-06
Applicant: DIRECT GENOMICS CO., LTD.
Inventor： Liangjin Ge , Yan Gao , Liwei Deng , Zengding Wu , Jinsen Cai , Daorui Ji , Lidong Zeng , Gailing Li
IPC: C12Q1/6869 , C12Q1/6825 , C12Q1/6823 , G06T7/00
CPC classification number: C12Q1/6869 , C12M1/34 , C12M1/36 , C12M1/38 , C12Q1/68 , C12Q1/6823 , C12Q1/6825 , C12Q2533/101 , C12Q2563/107 , C12Q2565/537 , C12Q2600/16 , G06T7/0012 , G06T2207/30072 , C12Q2535/122 , C12Q2565/101
Abstract: A sequencing method comprising: (i) combining a template nucleic acid having a first optical detection label at the end with a primer to obtain a first complex; (ii) imaging the first complex to obtain a first image; (iii) mixing the first complex, polymerase, and one or more of nucleotides with a optical detection label to obtain an extension product by polymerization reaction; (iv) imaging the extension product to obtain a second image; (v) removing the cleavable group of the nucleotides with the optical detection label from the extension product to obtain a second complex; (vi) repeating the above steps (ii) to (v) once or more times to determine the template nucleic acid sequence. The sequencing method can achieve single molecule sequencing by capturing template nucleic acids through primers.
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3.发明申请公开(公告)号：US20180165409A1
公开(公告)日：2018-06-14
申请号：US15824108
申请日：2017-11-28
Applicant: DIRECT GENOMICS CO., LTD.
Inventor： Weibin Xu , Huan Jin , Qin Yan , Zefei Jiang , Zhiliang Zhou
CPC classification number: G06F19/16 , G06F19/22 , G06T7/0012
Abstract: A method and a device for identifying a single molecule, a method and a device for counting a single molecule and a system for processing a single molecule are provided. The method for identifying the single molecule includes inputting time sequence of an intensity of an spot; forming a line chart of time and intensity of the spot according to the time sequence, wherein the line chart consists of a plurality of line segments; dividing the line chart into a plurality of grids in an array, counting the number of the line segments and/or ends of the line segments in each grid; subjecting the divided line chart to a line corrosion according to numbers corresponding to the grids to transform the divided line chart to a simplified image; subjecting the simplified image to run-length coding to indicate connected domains; calculating an area of each connected domain and determining that the connected domain corresponds to a single molecule if the area of the connected domain is greater than a first predetermined threshold. According to the method for identifying the single molecule, the line chart of the time sequence of the intensity of the spot is processed to transform into the image, which results in a quick identification for the single molecule and a high accuracy of the identification.
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公开(公告)号：US20180101951A1
公开(公告)日：2018-04-12
申请号：US15725552
申请日：2017-10-05
Applicant: DIRECT GENOMICS CO., LTD.
Inventor： Weibin Xu , Huan Jin , Qin Yan , Zefei Jiang , Zhiliang Zhou
IPC: G06T7/00
CPC classification number: G06T7/0012 , G06T5/20 , G06T7/136 , G06T7/194 , G06T2207/20024 , G06T2207/30024 , G06T2207/30072
Abstract: The present disclosure provides a method and a system for processing an image. The method includes: an image pre-processing step, including analyzing an image input to be processed so as to obtain a first image; and a spot detecting step, including analyzing the first image so as to compute a spot determining threshold; analyzing the first image so as to acquire a candidate pixel spot, and judging whether the candidate pixel spot is the spot according to the spot determining threshold; computing a sub-pixel center coordinate of the spot and an intensity value of the sub-pixel center coordinate if yes; and discarding the candidate pixel spot if no. According to the method, the image is denoised in the image pre-processing step, such that a calculation in the spot detecting step may be reduced. In addition, the accuracy of determining the image spot may be improved.
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公开(公告)号：US20190011365A1
公开(公告)日：2019-01-10
申请号：US15752417
申请日：2016-09-06
Applicant: DIRECT GENOMICS CO., LTD.
Inventor： Liangjin Ge , Luyang Zhao , Ping Wu , Qin Yan
CPC classification number: G01N21/6452 , G01N21/6458 , G01N21/648 , G01N2021/6419 , G02B21/0076 , G02B21/06 , G02B21/16 , G02B21/18 , G02B21/245 , G02B27/141
Abstract: The present disclosure discloses a total internal reflection fluorescence imaging system and a sequencing device. The total internal reflection fluorescence imaging system includes a first imaging system and a second imaging system. The first imaging system includes N separate laser light paths. The second imaging system determines the changes of the height of the sample by means of the differences of the positions at which the second receiving device acquires the second images, and performs automatic compensation according to the changes of the height of the sample, so as to ensure that the sample is always at a focused position. The embodiment can perform light path adjustment of the N separate laser light paths respectively by means of the second imaging system, so as to realize that the N separate laser light paths have the same penetration depth. Therefore no further light path adjustment is required when switching between different light sources, thus saving the time consuming for light path adjustment.
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Patent Agency Ranking
6.发明申请公开(公告)号：US20180187256A1
公开(公告)日：2018-07-05
申请号：US15855215
申请日：2017-12-27
Applicant: DIRECT GENOMICS CO., LTD.
Inventor： Jianfeng Xu , Ruitao Sun , Zefei Jiang , Zhiliang Zhou , Qin Yan
CPC classification number: C12Q1/6869 , B01L3/502715 , B01L3/502738 , B01L2400/0622 , G01N21/6486 , G01N35/00 , G01N35/0092 , G01N35/1002 , G02B7/28 , H04N5/23212 , H04N5/2354
Abstract: The present disclosure discloses a method for controlling a base sequence determination, a base sequence determination system, and a control device. The base sequence determination system includes a fluid device and an optical device, a reaction device includes a first component and a second component, and a repeated executable unit included in the base sequence determination is defined as: a second biochemical reaction—a first biochemical reaction—photographing. The method includes, after initiation steps are completed, using the fluid device to perform the second biochemical reaction and the first biochemical reaction of the sample on the first component, while using the optical device to photograph the sample on the second component. The initial steps include: a. using the fluid device to perform the first biochemical reaction of the sample on the first component, b. using the optical device to photograph the sample on the first component after the first biochemical reaction, and c. using the fluid device to perform the first biochemical reaction of the sample on the second component. The above-mentioned method can improve the efficiency of base sequence determination.
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7.发明授权公开(公告)号：US10303847B2
公开(公告)日：2019-05-28
申请号：US15824108
申请日：2017-11-28
Applicant: DIRECT GENOMICS CO., LTD.
Inventor： Weibin Xu , Huan Jin , Qin Yan , Zefei Jiang , Zhiliang Zhou
Abstract: A method and a device for identifying a single molecule, a method and a device for counting a single molecule and a system for processing a single molecule are provided. The method for identifying the single molecule includes inputting time sequence of an intensity of an spot; forming a line chart of time and intensity of the spot according to the time sequence, wherein the line chart consists of a plurality of line segments; dividing the line chart into a plurality of grids in an array, counting the number of the line segments and/or ends of the line segments in each grid; subjecting the divided line chart to a line erosion according to numbers corresponding to the grids to transform the divided line chart to a simplified image; subjecting the simplified image to run-length coding to indicate connected domains; calculating an area of each connected domain and determining that the connected domain corresponds to a single molecule if the area of the connected domain is greater than a first predetermined threshold. According to the method for identifying the single molecule, the line chart of the time sequence of the intensity of the spot is processed to transform into the image, which results in a quick identification for the single molecule and a high accuracy of the identification.
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公开(公告)号：US10301676B2
公开(公告)日：2019-05-28
申请号：US15611917
申请日：2017-06-02
Applicant: Direct Genomics Co., Ltd.
Inventor： Qin Yan , Zefei Jiang , Jiao Zheng , Ping Wu , Zhiliang Zhou , Liangjin Ge
IPC: G01N21/00 , C12Q1/6869 , C12M1/34 , B01L3/00 , B01L9/00 , G01N21/64 , G02B21/06 , G02B21/16 , G02B21/24
Abstract: A nucleic acid sequencing system is provided, including a base provided with a clamping platform, a reagent storage unit, a fluid control unit, a mobile platform and a total reflection microscope thereon; the clamping platform being provided with a gene sequencing chip thereon; the reagent storage unit being configured to store a gene sequencing reagent, the fluid control unit being configured to pump the gene sequencing reagent from the reagent storage unit to the gene sequencing chip, the mobile platform being configured to drive the clamping platform to move toward or away from the total reflection microscope; and the total reflection microscope being configured to detect a gene sequence of a sample in the gene sequencing chip.
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公开(公告)号：US20190001327A1
公开(公告)日：2019-01-03
申请号：US15752412
申请日：2016-08-12
Applicant: DIRECT GENOMICS CO., LTD.
IPC: B01L3/00 , C12Q1/6837
CPC classification number: B01L3/502707 , B01L3/5027 , B01L2200/027 , B01L2200/10 , B01L2200/12 , B01L2300/0816 , B01L2300/0877 , B01L2300/166 , C12M1/00 , C12M1/34 , C12Q1/68 , C12Q1/6837
Abstract: Disclosed is a chip. The chip comprises a substrate (1) and a base layer (2) in pressing arrangement with the substrate; the substrate comprises a first surface (1a) and a second surface (1b) in opposite arrangement, reaction tank arrays formed by a plurality of flowing channels (11) are arranged on the first surface of the substrate at intervals, two oppositely arranged side walls (111, 112) of each flowing channel (11) stretch along the length direction of the flowing channel (11) and intersect at two ends of the flowing channel to form two tapered tail ends (113) with included angles, and a fluid inlet hole (12) and a fluid outlet hole (13) which are communicated with the second surface of the substrate are respectively provided on the surfaces of the two tapered tail ends (113); and the base layer (2) comprises a transparent base (21) and a spacing layer (22) arranged on the surface of the transparent base, the spacing layer (22) is in contact with the firs surface (1a) of the substrate, and a corrosion groove is provided on the spacing layer (22) corresponding to a position where the flowing channel (11) is located. The flow field distribution of the chip is good, the deformation rate of a base in the chip is low, and the fluid in the chip can be fully flushed or replaced. Also disclosed is an application of the chip.
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10.发明授权公开(公告)号：US10127645B2
公开(公告)日：2018-11-13
申请号：US15752821
申请日：2016-08-11
Applicant: DIRECT GENOMICS CO., LTD.
Inventor： Liangjin Ge , Jianming Zeng , Qin Yan
Abstract: An embodiment of the present disclosure discloses a method and a device of correcting a single-molecule image, the method includes: acquiring the first target simplified matrix corresponding to the first image according to the intensity matrix corresponding to each of pixels in the first image, and acquiring the second target simplified matrix corresponding to the second image according to the intensity matrix corresponding to each of the pixels in the second image; the two-dimensional DFT is performed to the first target simplified matrix and the second target simplified matrix respectively to acquire the first Fourier matrix corresponding to the first target simplified matrix and the second Fourier matrix corresponding to the second target simplified matrix; the method of correcting a single-molecule image acquire the offset of the second image with respect to the first image according to the first Fourier matrix and the second Fourier matrix; and correcting the second image according to the offset. Such method can correct the images of single molecules taken at different moments.
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