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1. 发明授权

US08951731B2 Sequence analysis using decorated nucleic acids 有权
标题翻译：使用装饰核酸的序列分析
公开(公告)号：US08951731B2
公开(公告)日：2015-02-10
申请号：US12252280
申请日：2008-10-15
申请人： Radoje Drmanac , Snezana Drmanac
发明人： Radoje Drmanac , Snezana Drmanac
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/6869 , C12Q1/6825 , C12Q1/6874 , C12Q2565/631 , C12Q2535/119 , C12Q2521/319
摘要： The present invention provides a sequence interrogation chemistry that combines the accuracy and haplotype integrity of long-read sequencing with improved methods of preparing genomic nucleic acids and analyzing sequence information generated from those nucleic acids. The present invention encompasses compositions comprising decorated nucleic acids stretched on substrates. The present invention further encompasses methods of making stretched decorated nucleic acids and methods of using decorated nucleic acids to obtain sequence information.
摘要翻译：本发明提供了序列询问化学，其将长读取测序的准确度和单倍型完整性与改进的制备基因组核酸的方法和分析从这些核酸产生的序列信息相结合。本发明包括包含在底物上拉伸的装饰的核酸的组合物。本发明还包括制备延伸的装饰的核酸的方法和使用装饰的核酸获得序列信息的方法。

2. 发明授权

US08445194B2 Single molecule arrays for genetic and chemical analysis 有权
公开(公告)号：US08445194B2
公开(公告)日：2013-05-21
申请号：US11451691
申请日：2006-06-13
申请人： Radoje Drmanac , Matthew J. Callow , Snezana Drmanac , Brian K. Hauser , George Yeung
发明人： Radoje Drmanac , Matthew J. Callow , Snezana Drmanac , Brian K. Hauser , George Yeung
IPC分类号： C12Q1/68 , C12M1/36 , C07H21/04
CPC分类号： C12Q1/6874 , C07H21/04 , C07K1/047 , C12Q1/6806 , C12Q1/682 , C12Q1/6837 , C12Q1/6869 , C12Q2525/151 , C12Q2525/313 , C12Q2531/125 , C12Q2565/513 , G01N15/1404 , G01N15/1434 , Y10S977/778 , Y10S977/789 , Y10S977/792 , Y10S977/88 , Y10S977/882 , C12Q2521/307 , C12Q2525/161 , C12Q2535/122 , C12Q2563/179 , C12Q2565/514
摘要： Random arrays of single molecules are provided for carrying out large scale analyses, particularly of biomolecules, such as genomic DNA, cDNAs, proteins, and the like. In one aspect, arrays of the invention comprise concatemers of DNA fragments that are randomly disposed on a regular array of discrete spaced apart regions, such that substantially all such regions contain no more than a single concatemer. Preferably, such regions have areas substantially less than 1 μm2 and have nearest neighbor distances that permit optical resolution of on the order of 109 single molecules per cm2. Many analytical chemistries can be applied to random arrays of the invention, including sequencing by hybridization chemistries, sequencing by synthesis chemistries, SNP detection chemistries, and the like, to greatly expand the scale and potential applications of such techniques.

3. 发明授权

US08133719B2 Methods for making single molecule arrays 有权
标题翻译：制备单分子阵列的方法
公开(公告)号：US08133719B2
公开(公告)日：2012-03-13
申请号：US11981607
申请日：2007-10-31
申请人： Radoje Drmanac , Matthew J. Callow , Snezana Drmanac , Brian K. Hauser , George Yeung
发明人： Radoje Drmanac , Matthew J. Callow , Snezana Drmanac , Brian K. Hauser , George Yeung
IPC分类号： C12M1/36 , C07H21/04 , C12P19/34
CPC分类号： C12Q1/6874 , C07H21/04 , C07K1/047 , C12Q1/6806 , C12Q1/682 , C12Q1/6837 , C12Q1/6869 , C12Q2525/151 , C12Q2525/313 , C12Q2531/125 , C12Q2565/513 , G01N15/1404 , G01N15/1434 , Y10S977/778 , Y10S977/789 , Y10S977/792 , Y10S977/88 , Y10S977/882 , C12Q2521/307 , C12Q2525/161 , C12Q2535/122 , C12Q2563/179 , C12Q2565/514
摘要： Random arrays of single molecules are provided for carrying out large scale analyses, particularly of biomolecules, such as genomic DNA, cDNAs, proteins, and the like. In one aspect, arrays of the invention comprise concatemers of DNA fragments that are randomly disposed on a regular array of discrete spaced apart regions, such that substantially all such regions contain no more than a single concatemer. Preferably, such regions have areas substantially less than 1 μm2 and have nearest neighbor distances that permit optical resolution of on the order of 109 single molecules per cm2. Many analytical chemistries can be applied to random arrays of the invention, including sequencing by hybridization chemistries, sequencing by synthesis chemistries, SNP detection chemistries, and the like, to greatly expand the scale and potential applications of such techniques.
摘要翻译：提供单个分子的随机阵列用于进行大规模分析，特别是生物分子，例如基因组DNA，cDNAs，蛋白质等。在一个方面，本发明的阵列包括随机设置在离散间隔开的区域的规则阵列上的DNA片段的并列物质，使得基本上所有这些区域都包含不超过单个并联体。优选地，这样的区域具有基本上小于1μm2的面积，并且具有最近的相邻距离，其允许每厘米每分钟109个单分子的光学分辨率。许多分析化学物质可以应用于本发明的随机阵列，包括杂交化学测序，合成化学测序，SNP检测化学等，以大大扩展这些技术的规模和潜在应用。

4. 发明申请

US20090264299A1 High throughput genome sequencing on DNA arrays 审中-公开
公开(公告)号：US20090264299A1
公开(公告)日：2009-10-22
申请号：US11679124
申请日：2007-02-26
申请人： Radoje Drmanac , Matthew J. Callow , Snezana Drmanac
发明人： Radoje Drmanac , Matthew J. Callow , Snezana Drmanac
IPC分类号： C40B20/02 , C40B20/00 , C40B50/06 , C40B40/06
CPC分类号： C12Q1/6874 , C12N15/64 , C12N15/66 , Y10T436/143333 , C12Q2521/313 , C12Q2525/191 , C12Q2525/151 , C12Q2525/131 , C12Q2565/518 , C12Q2533/107 , C12Q2531/125
摘要： The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.

5. 发明申请

US20070099208A1 Single molecule arrays for genetic and chemical analysis 有权
标题翻译：用于遗传和化学分析的单分子阵列
公开(公告)号：US20070099208A1
公开(公告)日：2007-05-03
申请号：US11451691
申请日：2006-06-13
申请人： Radoje Drmanac , Matthew Callow , Snezana Drmanac , Brian Hauser , George Yeung
发明人： Radoje Drmanac , Matthew Callow , Snezana Drmanac , Brian Hauser , George Yeung
IPC分类号： C12Q1/68 , C12M1/34
CPC分类号： C12Q1/6874 , C07H21/04 , C07K1/047 , C12Q1/6806 , C12Q1/682 , C12Q1/6837 , C12Q1/6869 , C12Q2525/151 , C12Q2525/313 , C12Q2531/125 , C12Q2565/513 , G01N15/1404 , G01N15/1434 , Y10S977/778 , Y10S977/789 , Y10S977/792 , Y10S977/88 , Y10S977/882 , C12Q2521/307 , C12Q2525/161 , C12Q2535/122 , C12Q2563/179 , C12Q2565/514
摘要： Random arrays of single molecules are provided for carrying out large scale analyses, particularly of biomolecules, such as genomic DNA, cDNAs, proteins, and the like. In one aspect, arrays of the invention comprise concatemers of DNA fragments that are randomly disposed on a regular array of discrete spaced apart regions, such that substantially all such regions contain no more than a single concatemer. Preferably, such regions have areas substantially less than 1 μm2 and have nearest neighbor distances that permit optical resolution of on the order of 109 single molecules per cm2. Many analytical chemistries can be applied to random arrays of the invention, including sequencing by hybridization chemistries, sequencing by synthesis chemistries, SNP detection chemistries, and the like, to greatly expand the scale and potential applications of such techniques.
摘要翻译：提供单个分子的随机阵列用于进行大规模分析，特别是生物分子，例如基因组DNA，cDNAs，蛋白质等。在一个方面，本发明的阵列包括随机地设置在离散的间隔开的区域的规则阵列上的DNA片段的连接体，使得基本上所有这些区域都包含不超过单个并联体。优选地，这样的区域具有基本上小于1mum 2的面积，并且具有最接近的距离，其允许每厘米2的单分子的光学分辨率。许多分析化学物质可以应用于本发明的随机阵列，包括杂交化学测序，合成化学测序，SNP检测化学等，以大大扩展这些技术的规模和潜在应用。

6. 发明授权

US06864052B1 Enhanced sequencing by hybridization using pools of probes 有权
公开(公告)号：US06864052B1
公开(公告)日：2005-03-08
申请号：US09479608
申请日：2000-01-06
申请人： Radoje Drmanac , Snezana Drmanac , David Kita , Cory Cooke , Chongjun Xu
发明人： Radoje Drmanac , Snezana Drmanac , David Kita , Cory Cooke , Chongjun Xu
IPC分类号： C07H21/02 , C07H21/04 , C12P19/34 , C12Q1/68
CPC分类号： C12Q1/6874 , C12Q2537/165
摘要： The invention provides methods for sequencing by hybridization (SBH) using pools of probes that allow greater efficiency in conducting SBH by reducing the number of separate measurements of hybridization signals required to identify each particular nucleotide in a target nucleic acid sequence. The invention also provides pools and sets of pools of probes, as well as methods of generating pools of probes.

7. 发明授权

US08722326B2 High throughput genome sequencing on DNA arrays 有权
标题翻译： DNA阵列上的高通量基因组测序
公开(公告)号：US08722326B2
公开(公告)日：2014-05-13
申请号：US11981661
申请日：2007-10-31
申请人： Radoje T. Drmanac , Matthew Callow , Snezana Drmanac
发明人： Radoje T. Drmanac , Matthew Callow , Snezana Drmanac
IPC分类号： C12Q1/68 , C07H21/04 , C12P19/34
CPC分类号： C12Q1/6837 , C12Q1/6874 , C12Q2531/125 , C12Q2525/151 , C12Q2521/313
摘要： The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.
摘要翻译：本发明涉及使用分散在靶多核苷酸中的衔接子获得靶序列的核苷酸序列信息的方法和组合物。序列信息可以是新的，例如测序未知核酸，重新测序或基因分型。本发明优选地包括在多核苷酸的靶多核苷酸或片段内的间隔位置插入多个衔接子的方法。这样的衔接子可以用作使用各种测序化学品询问相邻序列的平台，例如通过引物延伸，探针连接等鉴定核苷酸的测序化学物质。在本发明中包括用于将已知衔接子序列插入靶序列的方法和组合物，使得与适配器存在连续靶序列的中断。通过对适配器的“上游”和“下游”进行排序，可以完成整个靶序列的识别。

8. 发明授权

US08440397B2 High throughput genome sequencing on DNA arrays 有权
公开(公告)号：US08440397B2
公开(公告)日：2013-05-14
申请号：US11981761
申请日：2007-10-31
申请人： Radoje Drmanac , Matthew J. Callow , Snezana Drmanac
发明人： Radoje Drmanac , Matthew J. Callow , Snezana Drmanac
IPC分类号： C12Q1/68 , C12P19/34 , C12M1/36
CPC分类号： C12Q1/6874 , C12N15/64 , C12N15/66 , Y10T436/143333 , C12Q2521/313 , C12Q2525/191 , C12Q2525/151 , C12Q2525/131 , C12Q2565/518 , C12Q2533/107 , C12Q2531/125
摘要： The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.

9. 发明申请

US20090155781A1 High throughput genome sequencing on DNA arrays 有权
公开(公告)号：US20090155781A1
公开(公告)日：2009-06-18
申请号：US11981761
申请日：2007-10-31
申请人： Radoje T. Drmanac , Matthew Callow , Snezana Drmanac
发明人： Radoje T. Drmanac , Matthew Callow , Snezana Drmanac
IPC分类号： C12Q1/68 , C12N15/64
CPC分类号： C12Q1/6874 , C12N15/64 , C12N15/66 , Y10T436/143333 , C12Q2521/313 , C12Q2525/191 , C12Q2525/151 , C12Q2525/131 , C12Q2565/518 , C12Q2533/107 , C12Q2531/125
摘要： The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.

10. 发明申请

US20090118488A1 High throughput genome sequencing on DNA arrays 审中-公开
公开(公告)号：US20090118488A1
公开(公告)日：2009-05-07
申请号：US11981793
申请日：2007-10-31
申请人： Radoje T. Drmanac , Matthew Callow , Snezana Drmanac
发明人： Radoje T. Drmanac , Matthew Callow , Snezana Drmanac
IPC分类号： C07H21/04
CPC分类号： C12Q1/6874 , C12N15/64 , C12N15/66 , Y10T436/143333 , C12Q2521/313 , C12Q2525/191 , C12Q2525/151 , C12Q2525/131 , C12Q2565/518 , C12Q2533/107 , C12Q2531/125
摘要： The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.

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