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1. 发明申请

US20030022207A1 Arrayed polynucleotides and their use in genome analysis 审中-公开
标题翻译：阵列多核苷酸及其在基因组分析中的应用
公开(公告)号：US20030022207A1
公开(公告)日：2003-01-30
申请号：US10153240
申请日：2002-05-22
申请人： Solexa, Ltd.
发明人： Shankar Balasubramanian , David Klenerman , Colin Barnes
IPC分类号： C12Q001/68 , C12M001/34
CPC分类号： B01J19/0046 , B01J2219/00317 , B01J2219/00497 , B01J2219/00527 , B01J2219/00529 , B01J2219/0054 , B01J2219/00572 , B01J2219/00576 , B01J2219/00585 , B01J2219/00596 , B01J2219/00605 , B01J2219/00608 , B01J2219/00612 , B01J2219/00626 , B01J2219/00637 , B01J2219/00648 , B01J2219/00659 , B01J2219/00702 , B01J2219/00707 , B01J2219/00722 , C12Q1/6837 , C12Q2525/301 , C40B40/06 , C40B60/14 , C12Q2565/507
摘要： The invention encompasses a method for determining a single nucleotide polymorphism present in a genome, comprising: (a) immobilizing polynucleotide molecules onto the surface of a support to form an array comprising polynucleotides located at addresses capable of interrogation, wherein each address of at least a subset of addresses on the array corresponds to a single polynucleotide molecule, and the array permits the subset of addresses to be individually resolved by optical microscopy, and wherein each such single polynucleotide molecule comprises a portion that is immobilized by covalent bonding to the surface and a portion that is capable of interrogation; (b) interrogating an address that corresponds to a single polynucleotide molecule to identify nucleotide sequence in the single polynucleotide molecule; and (c) comparing the nucleotides identified in step (b) with a known consensus sequence, and thereby determining differences between the consensus sequence and the sequence of the single polynucleotide molecule.
摘要翻译：本发明包括确定存在于基因组中的单核苷酸多态性的方法，包括：（a）将多核苷酸分子固定在载体的表面上以形成包含位于能够询问的地址的多核苷酸的阵列，其中至少一个阵列上的地址子集对应于单个多核苷酸分子，并且阵列允许通过光学显微镜单独解析地址子集，并且其中每个这样的单个多核苷酸分子包含通过共价键结合固定在表面上的部分和能够询问的部分; （b）询问对应于单个多核苷酸分子的地址以鉴定单个多核苷酸分子中的核苷酸序列; 和（c）将步骤（b）中鉴定的核苷酸与已知的共有序列进行比较，从而确定单个多核苷酸分子的共有序列和序列之间的差异。

2. 发明申请

US20040106110A1 Preparation of polynucleotide arrays 审中-公开
标题翻译：多核苷酸阵列的制备
公开(公告)号：US20040106110A1
公开(公告)日：2004-06-03
申请号：US10153267
申请日：2002-05-22
申请人： Solexa, Ltd.
发明人： Shankar Balasubramanian , David Klenerman , Colin Barnes , Mark Allen Osborne
IPC分类号： C12Q001/68 , C12M001/34
CPC分类号： B01J19/0046 , B01J2219/00317 , B01J2219/00497 , B01J2219/00527 , B01J2219/00529 , B01J2219/0054 , B01J2219/00572 , B01J2219/00576 , B01J2219/00585 , B01J2219/00596 , B01J2219/00605 , B01J2219/00608 , B01J2219/0061 , B01J2219/00612 , B01J2219/00617 , B01J2219/00626 , B01J2219/00637 , B01J2219/00648 , B01J2219/00659 , B01J2219/00702 , B01J2219/00707 , B01J2219/00722 , C12Q1/6837 , C12Q2525/301 , C40B40/06 , C40B60/14 , C12Q2565/507
摘要： A device comprising an array of molecules immobilised on a solid surface is disclosed, wherein the array has a high density of relatively short molecules and relatively long polynucleotides immobilised on the surface of a solid support, wherein the polynucleotides are at a density that permits individual resolution of those parts thereof that extend beyond the relatively short molecules.
摘要翻译：公开了一种包含固定在固体表面上的分子阵列的装置，其中所述阵列具有固定在固体支持物表面上的相对较短分子和相对长的多核苷酸的高密度，其中所述多核苷酸处于允许单独分辨的密度的那些部分延伸超过相对短的分子。

3. 发明申请

US20030064398A1 Synthesis of spatially addressed molecular arrays 有权
标题翻译：空间寻址分子阵列的合成
公开(公告)号：US20030064398A1
公开(公告)日：2003-04-03
申请号：US10210211
申请日：2002-08-01
申请人： Solexa, Ltd.
发明人： Colin Barnes
IPC分类号： C12Q001/68 , C12M001/34 , B05D003/00 , G06K009/00
CPC分类号： C07H21/00 , B01J19/0046 , B01J2219/00596 , B01J2219/00605 , B01J2219/00608 , B01J2219/00612 , B01J2219/00626 , B01J2219/00659 , B01J2219/00707 , B01J2219/00722 , C07B2200/11 , C40B40/06
摘要： Methods are disclosed for forming spatially addressable arrays of polynucleotides of known squence, by using blocking groups that prevent the incorporation of multiple nucleotides during each incorporation step.
摘要翻译：公开了通过使用在每个掺入步骤期间阻止多核苷酸掺入的阻断基团来形成已知间隔的多核苷酸的空间可寻址阵列的方法。

4. 发明申请

WO2008023179A3 METHOD FOR RETAINING EVEN COVERAGE OF SHORT INSERT LIBRARIES 审中-公开
标题翻译：保留短片插图的覆盖方法
公开(公告)号：WO2008023179A3
公开(公告)日：2008-05-29
申请号：PCT/GB2007003210
申请日：2007-08-23
申请人： SOLEXA LTD , GORMLEY NIALL ANTHONY , SMITH MELANIE ANNE
发明人： GORMLEY NIALL ANTHONY , SMITH MELANIE ANNE
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6855 , C12Q2533/101
摘要： The invention relates to a method of preparing a library of template polynucleotides with uniform sequence representation and to use of a library of templates prepared using this method for solid-phase nucleic acid amplification. In particular, the invention relates to a method of preparing a library of template polynucleotides which have common sequences at their (5') ends and at their (3') ends, which contains even representation of all the fragments present in a starting sample of nucleic acid before fragmentation. The invention is especially applicable to the preparation of short insert libraries, where the sample fragments are less than (150) base pairs in length.
摘要翻译：本发明涉及一种制备具有均匀序列表示的模板多核苷酸文库的方法，以及使用该方法制备的模板文库用于固相核酸扩增。特别地，本发明涉及一种制备在其（5'）末端和（3'）末端具有共同序列的模板多核苷酸文库的方法，其包含偶存在起始样品中存在的所有片段分裂前的核酸。本发明特别适用于短插入文库的制备，其中样品片段长度小于（150）碱基对。

5. 发明申请

WO03048387A3 LABELLED NUCLEOTIDES 审中-公开
标题翻译：标签核心
公开(公告)号：WO03048387A3
公开(公告)日：2003-10-16
申请号：PCT/GB0205474
申请日：2002-12-04
申请人： SOLEXA LTD , BALASUBRAMANIAN SHANKAR , BARNES COLIN , LIU XIAOHAI , SWERDLOW HAROLD
发明人： BALASUBRAMANIAN SHANKAR , BARNES COLIN , LIU XIAOHAI , SWERDLOW HAROLD
IPC分类号： G01N33/53 , C07H19/06 , C07H19/10 , C07H19/16 , C07H19/20 , C07H21/00 , C07H21/04 , C12N15/09 , G01N33/533 , G01N33/566 , C12Q1/68
CPC分类号： C07H19/06 , C07H19/10 , C07H19/16 , C07H19/20 , C07H21/00 , C12Q1/6869 , C12Q2525/186 , C12Q2535/113 , C12Q2525/197
摘要： Nucleosides and nucleotides are disclosed that are linked to detectable labels via a cleavable linker group.
摘要翻译：公开了通过可切割连接基团与可检测标记物连接的核苷和核苷酸。

6. 发明申请

WO03016565A2 DNA SEQUENCE ANALYSIS 审中-公开
标题翻译： DNA序列分析
公开(公告)号：WO03016565A2
公开(公告)日：2003-02-27
申请号：PCT/GB0203750
申请日：2002-08-13
申请人： SOLEXA LTD , BALASUBRAMANIAN SHANKAR , KLENERMAN DAVID , BARNES COLIN , WILLIAMSON ALAN ROWE
发明人： BALASUBRAMANIAN SHANKAR , KLENERMAN DAVID , BARNES COLIN , WILLIAMSON ALAN ROWE
IPC分类号： G01N21/78 , C12N15/09 , C12Q1/68
CPC分类号： C12Q1/6858 , C12Q1/6874 , C12Q2600/156 , C12Q2565/501 , C12Q2533/101 , C12Q2525/186
摘要： The present invention concerns a method for determining the identity of one or more single nucleotide polymorphisms (SNP) in a genome, comprising: (i) fragmenting a sample genome; (ii) contacting the fragments with an excess of a plurality of different oligonucleotide primers under conditions that permit a primer to form a duplex with a complementary region on a fragment, each primer having a predetermined sequence complementary to a sequence on the genome that is proximal to a putative SNP site, and the resulting duplexes being immobilised on a solid support; (iii) carrying out the sequencing reaction(s) and detecting the incorporation of bases onto the oligonucleotide primers to extend the primers to at least the SNP site; and(iv) comparing the resulting sequences to those of the reference one or more SNPs.
摘要翻译：本发明涉及用于确定基因组中一个或多个单核苷酸多态性（SNP）的身份的方法，其包括：（i）片段化样品基因组; （ii）在允许引物与片段上的互补区域形成双链体的条件下，使片段与过量的多种不同的寡核苷酸引物接触，每种引物具有与基因组上的近端序列互补的预定序列到推定的SNP位点，并且所得的双链体被固定在固体支持物上; （iii）进行测序反应并检测碱基掺入寡核苷酸引物以将引物延伸至至少SNP位点; 和（iv）将所得序列与参考一个或多个SNP的序列进行比较。

7. 发明申请

WO2007010263A3 METHODS FOR SEQUENCING A POLYNUCLEOTIDE TEMPLATE 审中-公开
标题翻译：测序多核苷酸模板的方法
公开(公告)号：WO2007010263A3
公开(公告)日：2007-04-12
申请号：PCT/GB2006002709
申请日：2006-07-20
申请人： SOLEXA LTD , SWERDLOW HAROLD PHILIP
发明人： SWERDLOW HAROLD PHILIP
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6869 , C12Q1/6853 , C12Q2565/525 , C12Q2533/101 , C12Q2525/119 , C12Q2525/301 , C12Q2535/119 , C12Q2565/537
摘要： The invention relates to methods for pairwise sequencing of a polynucleotide template which result in the sequential determination of nucleotide sequence in two distinct and separate regions of the polynucleotide template.
摘要翻译：本发明涉及用于成对测序多核苷酸模板的方法，其导致多核苷酸模板的两个不同且独立的区域中的核苷酸序列的连续测定。

8. 发明申请

WO2005068089A2 MULTIPLE INEXACT MATCHING 审中-公开
标题翻译：多项式匹配
公开(公告)号：WO2005068089A2
公开(公告)日：2005-07-28
申请号：PCT/GB2005000106
申请日：2005-01-14
申请人： SOLEXA LTD , COX ANTHONY JAMES
发明人： COX ANTHONY JAMES
IPC分类号： G06F19/22 , B06F
CPC分类号： G06F19/22
摘要： Methods and apparatus are provided for seeking, in a target sequence, an exact or inexact match to a query sequence, or each of a large number of query sequences, which could be DNA fragments for which an approximate match is sought in a genome. Initially, each query sequence is divided into segments, which are distributed between first and second segment groups. An efficient algorithm is then used to seek potential matches between a first group of segments of each query sequence and a corresponding first group of segments of each target sequence fragment.
摘要翻译：提供了方法和装置，用于以目标序列寻求与查询序列或大量查询序列中的每一个精确或不精确的匹配，其可以是在基因组中寻求近似匹配的DNA片段。最初，每个查询序列被分成段，分段在第一和第二段组之间。然后使用有效的算法来寻找每个查询序列的第一组片段与每个靶序列片段的对应的第一组片段之间的潜在匹配。

9. 发明申请

WO2003016565A3 DNA SEQUENCE ANALYSIS 审中-公开
公开(公告)号：WO2003016565A3
公开(公告)日：2003-02-27
申请号：PCT/GB2002/003750
申请日：2002-08-13
申请人： SOLEXA LTD , BALASUBRAMANIAN, Shankar , KLENERMAN, David , BARNES, Colin , WILLIAMSON, Alan, Rowe
发明人： BALASUBRAMANIAN, Shankar , KLENERMAN, David , BARNES, Colin , WILLIAMSON, Alan, Rowe
IPC分类号： C12Q1/68
摘要： The present invention concerns a method for determining the identity of one or more single nucleotide polymorphisms (SNP) in a genome, comprising: (i) fragmenting a sample genome; (ii) contacting the fragments with an excess of a plurality of different oligonucleotide primers under conditions that permit a primer to form a duplex with a complementary region on a fragment, each primer having a predetermined sequence complementary to a sequence on the genome that is proximal to a putative SNP site, and the resulting duplexes being immobilised on a solid support; (iii) carrying out the sequencing reaction(s) and detecting the incorporation of bases onto the oligonucleotide primers to extend the primers to at least the SNP site; and(iv) comparing the resulting sequences to those of the reference one or more SNPs.

10. 发明申请

WO2002061127A2 ARRAYED POLYNUCLEOTIDES AND THEIR USE IN GENOME ANALYSIS 审中-公开
标题翻译：阵列多核苷酸及其在基因组分析中的应用
公开(公告)号：WO2002061127A2
公开(公告)日：2002-08-08
申请号：PCT/GB2002/000439
申请日：2002-01-30
申请人： SOLEXA LTD. , BARNES, Colin , BALASUBRAMANIAN, Shankar , KLENERMAN, David
发明人： BARNES, Colin , BALASUBRAMANIAN, Shankar , KLENERMAN, David
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6837 , B01J19/0046 , B01J2219/00497 , B01J2219/00527 , B01J2219/00529 , B01J2219/00585 , B01J2219/00596 , B01J2219/00605 , B01J2219/00608 , B01J2219/00612 , B01J2219/00626 , B01J2219/00659 , B01J2219/00707 , B01J2219/00722 , C12Q2525/301 , C40B40/06 , C12Q2565/507 , C12Q2565/107 , C12Q2525/197 , C12Q2565/619
摘要： A method for determining a single nucleotide polymorphism present in a genome, comprises the steps of: (i) immobilising fragments of said genome onto the surface of a solid support to form an array of polynucleotide molecules capable of interrogation, wherein the array allows the molecules to be individually resolved by optical microscopy, and wherein each molecule is immobilised by covalent bonding to the surface, other than at part of each molecule that can be interrogated; (ii) identifying nucleotides at selected positions in the genome; and (iii) comparing the results of step (ii) with a known consensus sequence, and identifying any differences between the consensus sequence and said genome.
摘要翻译：确定存在于基因组中的单核苷酸多态性的方法包括以下步骤：（i）将所述基因组的片段固定在固体支持物的表面上以形成能够询问的多核苷酸分子阵列，其中该阵列允许分子通过光学显微镜单独解析，并且其中每个分子通过共价键合固定在表面上，而不是每个可被询问的分子的部分; （ii）鉴定基因组中选定位置的核苷酸; 和（iii）将步骤（ii）的结果与已知的共有序列比较，并鉴定共有序列和所述基因组之间的任何差异。

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