公开(公告)号：US09650673B2

公开(公告)日：2017-05-16

申请号：US14714133

申请日：2015-05-15

Applicant: Complete Genomics, Inc.

Inventor： Radoje Drmanac ,  Matthew J. Callow ,  Snezana Drmanac ,  Brian K. Hauser ,  George Yeung

IPC: C12Q1/68 ,  C07H21/04 ,  C07K1/04

CPC classification number: 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

Abstract: Random arrays of single molecules are provided for carrying out large scale analyzes, 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.

公开(公告)号：US09267172B2

公开(公告)日：2016-02-23

申请号：US13965166

申请日：2013-08-12

Applicant: Complete Genomics, Inc.

Inventor： Radoje Drmanac ,  Matthew J. Callow

IPC: C12Q1/68 ,  C12P19/34 ,  C12M1/34 ,  C12M3/00 ,  C07H21/02 ,  C07H21/04

CPC classification number: C12Q1/6874 ,  C12Q1/6855 ,  C12Q2531/125 ,  C12Q2521/313 ,  C12Q2521/125 ,  C12Q2537/163 ,  C12Q2525/191 ,  C12Q2521/531 ,  C12Q2521/501 ,  C12Q2525/307 ,  C12Q2525/151

Abstract: The present invention is directed to compositions and methods for nucleic acid identification and detection. Compositions and methods of the present invention include extracting and fragmenting target nucleic acids from a sample, using the fragmented target nucleic acids to produce target nucleic acid templates and subjecting those target nucleic acid templates to amplification methods to form nucleic acid nanoballs. The invention also includes methods of detecting and identifying sequences using various sequencing applications, including sequencing by ligation methods.

公开(公告)号：US20190010542A1

公开(公告)日：2019-01-10

申请号：US15940771

申请日：2018-03-29

Applicant: Complete Genomics Inc.

Inventor： Radoje Drmanac ,  Matthew J. Callow ,  Snezana Drmanac

IPC: C12Q1/6874 ,  C12N15/66 ,  C12N15/64

Abstract: 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.

公开(公告)号：US20180002735A1

公开(公告)日：2018-01-04

申请号：US15457471

申请日：2017-03-13

Applicant: Complete Genomics, Inc.

Inventor： Radoje T. Drmanac ,  Matthew J. Callow

IPC: C12Q1/68

CPC classification number: C12Q1/686 ,  C12Q1/6809 ,  C12Q1/6874 ,  C12Q2565/501 ,  C12Q2539/103 ,  C12Q2531/119

Abstract: The present invention is related generally to analysis of polynucleotides, particularly polynucleotides derived from genomic DNA. The invention provides methods, compositions and systems for such analysis. Encompassed by the invention are arrays of polynucleotides in which the polynucleotides have undergone multiple rounds of amplification in order to increase the strength of signals associated with single polynucleotide molecules.

公开(公告)号：US20170226577A1

公开(公告)日：2017-08-10

申请号：US15267514

申请日：2016-09-16

Applicant: Complete Genomics Inc.

Inventor： Radoje Drmanac ,  Matthew J. Callow ,  Snezana Drmanac

IPC: C12Q1/68

CPC classification number: C12Q1/6874 ,  C12N15/64 ,  C12N15/66 ,  Y10T436/143333 ,  C12Q2521/313 ,  C12Q2525/191 ,  C12Q2525/151 ,  C12Q2525/131 ,  C12Q2565/518 ,  C12Q2533/107 ,  C12Q2531/125

Abstract: 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.

公开(公告)号：US20170175184A1

公开(公告)日：2017-06-22

申请号：US15442659

申请日：2017-02-25

Applicant: Complete Genomics, Inc.

Inventor： Radoje Drmanac ,  Matthew J. Callow ,  Snezana Drmanac ,  Brian K. Hauser ,  George Yeung

IPC: C12Q1/68 ,  G01N15/14

CPC classification number: 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

Abstract: The invention relates to an automated method for high-throughput DNA sequencing from high density DNA arrays by (a) initiating a first sequencing reaction on a first high density DNA array; and imaging said first high density DNA array using a detector, and (b) initiating a first sequencing reaction on a second high density DNA array; and imaging said second high density DNA array using the detector, wherein the first sequencing reaction in (a) is initiated before the first sequencing reaction in (b) is initiated such that the sequencing reactions in (a) and (b) are staggered. By using asynchronous sequencing reactions and imaging two separate arrays using one detector, imaging can be carried out on one array while sequencing reactions are carried out on one the other, substrate, the other substrate is imaged, reducing the idle time of the imaging system.