公开(公告)号：US09482615B2

公开(公告)日：2016-11-01

申请号：US13046457

申请日：2011-03-11

申请人： Chung-Fan Chiou ,  Ying-Chih Pu ,  Chao-Chi Pan ,  Chih-Tsung Shih ,  Ming-Chia Li ,  Chein-Shiu Kuo ,  Hung-Chi Chien ,  Chang-Sheng Chu

发明人： Chung-Fan Chiou ,  Ying-Chih Pu ,  Chao-Chi Pan ,  Chih-Tsung Shih ,  Ming-Chia Li ,  Chein-Shiu Kuo ,  Hung-Chi Chien ,  Chang-Sheng Chu

IPC分类号： G01N21/00 ,  G01N21/64 ,  C12Q1/68 ,  G01N21/77

CPC分类号： C12Q1/6869 ,  G01N21/6428 ,  G01N21/6452 ,  G01N21/6454 ,  G01N21/648 ,  G01N21/7703 ,  G01N2021/6439 ,  G01N2201/08 ,  G01N2201/12 ,  C12Q2563/155 ,  C12Q2561/113

摘要： Embodiments encompass a single-molecule detection system and methods of using the detection system to detect an object. Further, embodiments encompass a detection system comprising a movable light coupler, a waveguide, and a light detector. Embodiments further encompass methods of single-molecule detection, including methods of single-molecule nucleic acid sequencing.

摘要翻译： 实施例包括单分子检测系统和使用检测系统检测物体的方法。 此外，实施例包括包括可移动光耦合器，波导和光检测器的检测系统。 实施方案进一步包括单分子检测的方法，包括单分子核酸测序的方法。

公开(公告)号：US20110300534A1

公开(公告)日：2011-12-08

申请号：US13117565

申请日：2011-05-27

申请人： Chung-Fan Chiou ,  Chao-Chi Pan ,  Jenn-Yeh Fann ,  Shang-Chia Chang ,  Tsu-Ju Fu

发明人： Chung-Fan Chiou ,  Chao-Chi Pan ,  Jenn-Yeh Fann ,  Shang-Chia Chang ,  Tsu-Ju Fu

IPC分类号： C12Q1/68 ,  C07H21/04

CPC分类号： C07H21/00 ,  C07H21/04 ,  C12Q1/6869 ,  C12Q2525/117 ,  C12Q2525/119 ,  C12Q2565/101

摘要： Embodiments relate to methods of sequencing nucleic acids. Embodiments encompass the use of nucleotide analogs and a nucleic acid polymerase enzyme or enzyme complex comprising proofreading activity. The nucleotide analogs may become incorporated into a replicating strand and induce the proofreading activity of the polymerizing enzyme, thereby prolonging the duration of a signal associated with nucleotide incorporation, resulting in more observable sequencing events and increasing the accuracy of nucleic acid sequencing.

摘要翻译： 实施方案涉及核酸测序方法。 实施方案包括使用核苷酸类似物和包含校正活性的核酸聚合酶或酶复合物。 核苷酸类似物可以并入复制链中并诱导聚合酶的校正活性，从而延长与核苷酸掺入相关的信号的持续时间，导致更可观测的测序事件并增加核酸测序的准确性。

公开(公告)号：US20110153249A1

公开(公告)日：2011-06-23

申请号：US12974872

申请日：2010-12-21

申请人： Bai-Kuang HWANG ,  Jenn-Yeh FANN ,  Chao-Chi PAN

发明人： Bai-Kuang HWANG ,  Jenn-Yeh FANN ,  Chao-Chi PAN

IPC分类号： G06F19/00

CPC分类号： G06F19/22 ,  C12Q1/6869

摘要： The invention provides a sequence calibration method, including: (a) obtaining a first reading sequence and a second reading sequence from an identical source by a receiving unit; (b) setting a comparison condition by a determining unit; and (c) comparing the first reading sequence with the second reading sequence according to the comparison condition to generate a sequence comparison result by the determining unit; and (d) outputting a calibrated sequence according to the sequence comparison result by the determining unit, wherein the comparison condition is set according to a first seed table of the first reading sequence and a second seed table of the second reading sequence.

摘要翻译： 本发明提供了一种序列校准方法，包括：（a）由接收单元从相同的源获得第一读取序列和第二读取序列; （b）由确定单元设置比较条件; 和（c）根据比较条件比较第一读取序列与第二读取序列以由确定单元生成序列比较结果; 以及（d）根据所述确定单元的序列比较结果输出经校准的序列，其中根据所述第一读取序列的第一种子表和所述第二读取序列的第二种子表来设置所述比较条件。

公开(公告)号：US09670243B2

公开(公告)日：2017-06-06

申请号：US13117565

申请日：2011-05-27

申请人： Chung-Fan Chiou ,  Chao-Chi Pan ,  Jenn-Yeh Fann ,  Shang-Chia Chang ,  Tsu-Ju Fu

发明人： Chung-Fan Chiou ,  Chao-Chi Pan ,  Jenn-Yeh Fann ,  Shang-Chia Chang ,  Tsu-Ju Fu

IPC分类号： C12Q1/68 ,  C12P19/34 ,  C07H21/04 ,  C07H21/02 ,  C07H19/04

CPC分类号： C07H21/00 ,  C07H21/04 ,  C12Q1/6869 ,  C12Q2525/117 ,  C12Q2525/119 ,  C12Q2565/101

摘要： Embodiments relate to methods of sequencing nucleic acids. Embodiments encompass the use of nucleotide analogs and a nucleic acid polymerase enzyme or enzyme complex comprising proofreading activity. The nucleotide analogs may become incorporated into a replicating strand and induce the proofreading activity of the polymerizing enzyme, thereby prolonging the duration of a signal associated with nucleotide incorporation, resulting in more observable sequencing events and increasing the accuracy of nucleic acid sequencing.

公开(公告)号：US08700340B2

公开(公告)日：2014-04-15

申请号：US12974872

申请日：2010-12-21

申请人： Bai-Kuang Hwang ,  Jenn-Yeh Fann ,  Chao-Chi Pan

发明人： Bai-Kuang Hwang ,  Jenn-Yeh Fann ,  Chao-Chi Pan

IPC分类号： G06F19/00 ,  C12Q1/68 ,  G06F19/22

CPC分类号： G06F19/22 ,  C12Q1/6869

摘要： The invention provides a sequence calibration method, including: (a) obtaining a first reading sequence and a second reading sequence from an identical source by a receiving unit; (b) setting a comparison condition by a determining unit; and (c) comparing the first reading sequence with the second reading sequence according to the comparison condition to generate a sequence comparison result by the determining unit; and (d) outputting a calibrated sequence according to the sequence comparison result by the determining unit, wherein the comparison condition is set according to a first seed table of the first reading sequence and a second seed table of the second reading sequence.

摘要翻译： 本发明提供了一种序列校准方法，包括：（a）由接收单元从相同的源获得第一读取序列和第二读取序列; （b）由确定单元设置比较条件; 和（c）根据比较条件比较第一读取序列与第二读取序列以由确定单元生成序列比较结果; 以及（d）根据所述确定单元的序列比较结果输出经校准的序列，其中根据所述第一读取序列的第一种子表和所述第二读取序列的第二种子表来设置所述比较条件。

公开(公告)号：US08486630B2

公开(公告)日：2013-07-16

申请号：US12613291

申请日：2009-11-05

申请人： Chao-Chi Pan ,  Jenn-Yeh Fann ,  Chung-Fan Chiou ,  Hung-Chi Chien ,  Hui-Ling Chen

发明人： Chao-Chi Pan ,  Jenn-Yeh Fann ,  Chung-Fan Chiou ,  Hung-Chi Chien ,  Hui-Ling Chen

IPC分类号： C12Q1/68

CPC分类号： G06F19/22 ,  C12Q1/6869 ,  C12Q2531/125 ,  C12Q2537/165

摘要： Disclosed herein are methods of determining the sequence and/or positions of modified bases in a nucleic acid sample present in a circular molecule with a nucleic acid insert of known sequence comprising obtaining sequence data of at least two insert-sample units. In some embodiments, the methods comprise obtaining sequence data using circular pair-locked molecules. In some embodiments, the methods comprise calculating scores of sequences of the nucleic acid inserts by comparing the sequences to the known sequence of the nucleic acid insert, and accepting or rejecting repeats of the sequence of the nucleic acid sample according to the scores of one or both of the sequences of the inserts immediately upstream or downstream of the repeats of the sequence of the nucleic acid sample.

摘要翻译： 本文公开了在具有已知序列的核酸插入物的环状分子中存在的核酸样品中修饰碱基的序列和/或位置的方法，包括获得至少两个插入样品单元的序列数据。 在一些实施方案中，所述方法包括使用环状双锁定分子获得序列数据。 在一些实施方案中，所述方法包括通过将序列与核酸插入物的已知序列进行比较来计算核酸插入序列的分数，以及根据一个或多个核酸插入片段的得分接受或排除核酸样品序列的重复序列 插入物的两个序列紧接着核酸样品序列的重复序列的上游或下游。

公开(公告)号：US07767441B2

公开(公告)日：2010-08-03

申请号：US12255044

申请日：2008-10-21

申请人： Chung-Fan Chiou ,  Cheng-Wei Chu ,  Shang-Chia Chang ,  Yu-Tang Li ,  Chao-Chi Pan ,  Bin-Cheng Yao

发明人： Chung-Fan Chiou ,  Cheng-Wei Chu ,  Shang-Chia Chang ,  Yu-Tang Li ,  Chao-Chi Pan ,  Bin-Cheng Yao

IPC分类号： C12M3/00

CPC分类号： C12Q1/6869 ,  C12Q1/6804 ,  C12Q1/6874 ,  G01N21/6454 ,  C12Q2565/607 ,  C12Q2565/518 ,  C12Q2535/101

摘要： A bioassay system is disclosed. The bioassay system may include a plurality of optical detection apparatuses, each of which includes a substrate having a light detector, and a linker site formed over the light detector, the linker site being treated to affix the biomolecule to the linker site. The linker site is proximate to the light detector and is spaced apart from the light detector by a distance of less than or equal to 100 micrometers. The light detector collects light emitted from the biomolecule within a solid angle of greater than or equal to 0.8 SI steridian. The optical detection apparatus may further include an excitation light source formed over the substrate so as to provide a light source for exciting a fluorophore attached to the biomolecule.

摘要翻译： 公开了生物测定系统。 生物测定系统可以包括多个光学检测装置，每个光学检测装置包括具有光检测器的基板和在光检测器上形成的连接部位，所述连接部位被处理以将生物分子固定到连接部位。 接头位置靠近光检测器，并且与光检测器间隔开小于或等于100微米的距离。 光检测器以大于或等于0.8SI steridian的立体角收集从生物分子发射的光。 光学检测装置还可以包括形成在衬底上的激发光源，以便提供用于激发与生物分子相连的荧光团的光源。

公开(公告)号：US20090146076A1

公开(公告)日：2009-06-11

申请号：US12255044

申请日：2008-10-21

申请人： Chung-Fan CHIOU ,  Cheng-Wei CHU ,  Shang-Chia CHANG ,  Yu-Tang LI ,  Chao-Chi PAN ,  Bin-Cheng YAO

发明人： Chung-Fan CHIOU ,  Cheng-Wei CHU ,  Shang-Chia CHANG ,  Yu-Tang LI ,  Chao-Chi PAN ,  Bin-Cheng YAO

IPC分类号： G01J1/58 ,  G01N1/00

CPC分类号： C12Q1/6869 ,  C12Q1/6804 ,  C12Q1/6874 ,  G01N21/6454 ,  C12Q2565/607 ,  C12Q2565/518 ,  C12Q2535/101

摘要： A bioassay system is disclosed. The bioassay system may include a plurality of optical detection apparatuses, each of which includes a substrate having a light detector, and a linker site formed over the light detector, the linker site being treated to affix the biomolecule to the linker site. The linker site is proximate to the light detector and is spaced apart from the light detector by a distance of less than or equal to 100 micrometers. The light detector collects light emitted from the biomolecule within a solid angle of greater than or equal to 0.8 SI steridian. The optical detection apparatus may further include an excitation light source formed over the substrate so as to provide a light source for exciting a fluorophore attached to the biomolecule.

摘要翻译： 公开了生物测定系统。 生物测定系统可以包括多个光学检测装置，每个光学检测装置包括具有光检测器的基板和在光检测器上形成的连接部位，所述连接部位被处理以将生物分子固定到连接部位。 接头位置靠近光检测器，并且与光检测器间隔开小于或等于100微米的距离。 光检测器以大于或等于0.8SI steridian的立体角收集从生物分子发射的光。 光学检测装置还可以包括形成在衬底上的激发光源，以便提供用于激发与生物分子相连的荧光团的光源。

公开(公告)号：US07150856B2

公开(公告)日：2006-12-19

申请号：US11242862

申请日：2005-10-05

申请人： Bor-Iuan Jan ,  Jia-Huey Tsao ,  Chih-Wei Ho ,  Chao-Chi Pan

发明人： Bor-Iuan Jan ,  Jia-Huey Tsao ,  Chih-Wei Ho ,  Chao-Chi Pan

IPC分类号： C12M1/34 ,  G01N33/53 ,  C07H21/02 ,  C12Q1/68

CPC分类号： B01J19/0046 ,  B01J2219/00432 ,  B01J2219/00585 ,  B01J2219/00596 ,  B01J2219/00605 ,  B01J2219/0061 ,  B01J2219/00612 ,  B01J2219/00617 ,  B01J2219/00619 ,  B01J2219/00626 ,  B01J2219/00635 ,  B01J2219/00637 ,  B01J2219/00659 ,  B01J2219/00711 ,  B01J2219/00722 ,  B01J2219/00725 ,  B01J2219/00729 ,  B82Y30/00 ,  G02B21/34

摘要： An on-spot selectively activated hydrophobic slide/microarray. The preparation method relates to a hydrophobic copolymer prepared by blending, grafting or co-polymerization of a hydrophobic material and a compound bearing a functional group protected by a protecting group, wherein the functional group is imide or cyclic amide, and the protecting group is a photo acid group such as a tosyloxy group. The hydrophobic copolymer coated on a substrate is then subjected to selective photolithographical activation so that the slide will have functional active copolymer spots separated by inactive copolymers. The resulting slide is suitable for the preparation of high-density and high-efficiency bio-chip/microarray.

公开(公告)号：US20060029974A1

公开(公告)日：2006-02-09

申请号：US11242921

申请日：2005-10-05

申请人： Bor-Iuan Jan ,  Jia-Huey Tsao ,  Chih-Wei Ho ,  Chao-Chi Pan

发明人： Bor-Iuan Jan ,  Jia-Huey Tsao ,  Chih-Wei Ho ,  Chao-Chi Pan

IPC分类号： C12Q1/68 ,  C12M1/34

CPC分类号： B01J19/0046 ,  B01J2219/00432 ,  B01J2219/00585 ,  B01J2219/00596 ,  B01J2219/00605 ,  B01J2219/0061 ,  B01J2219/00612 ,  B01J2219/00617 ,  B01J2219/00619 ,  B01J2219/00626 ,  B01J2219/00635 ,  B01J2219/00637 ,  B01J2219/00659 ,  B01J2219/00711 ,  B01J2219/00722 ,  B01J2219/00725 ,  B01J2219/00729 ,  B82Y30/00 ,  G02B21/34

摘要： An on-spot selectively activated hydrophobic slide/microarray. The preparation method relates to a hydrophobic copolymer prepared by blending, grafting or co-polymerization of a hydrophobic material and a compound bearing a functional group protected by a protecting group, wherein the functional group is imide or cyclic amide, and the protecting group is a photo acid group such as a tosyloxy group. The hydrophobic copolymer coated on a substrate is then subjected to selective photolithographical activation so that the slide will have functional active copolymer spots separated by inactive copolymers. The resulting slide is suitable for the preparation of high-density and high-efficiency bio-chip/microarray.