公开(公告)号：US08370079B2

公开(公告)日：2013-02-05

申请号：US12592284

申请日：2009-11-20

Applicant: Jon Sorenson ,  Susan Tang ,  Patrick Marks ,  Chen-Shan Chin

Inventor： Jon Sorenson ,  Susan Tang ,  Patrick Marks ,  Chen-Shan Chin

IPC: G06F19/00 ,  G06F19/10

CPC classification number: G06F19/22

Abstract: The present invention is generally directed to powerful and flexible methods and systems for consensus sequence determination from replicate biomolecule sequence data. It is an object of the present invention to improve the accuracy of consensus biomolecule sequence determination from replicate sequence data by providing methods for assimilating replicate sequence into a final consensus sequence more accurately than any one-pass sequence analysis system.

Abstract translation: 本发明通常涉及用于从复制生物分子序列数据进行共有序列确定的强大且灵活的方法和系统。 本发明的目的是通过提供比任何一次序列分析系统更准确地将重复序列同化到最终共有序列中的方法来提高从重复序列数据确定共有生物分子序列的准确性。

公开(公告)号：US20110183320A1

公开(公告)日：2011-07-28

申请号：US12945767

申请日：2010-11-12

Applicant: Benjamin Flusberg ,  Jonas Korlach ,  Jeffrey Wegener ,  Tyson A. Clark ,  Igor Vilfan ,  Andrey Kislyuk ,  Stephen Turner ,  Jon Sorenson ,  Kevin Travers ,  Cheryl Heiner ,  Austin B. Tomaney ,  Patrick Marks ,  Jessica Lee ,  Lei Jia ,  Dale Webster ,  John Lyle ,  Jeremiah Hanes ,  Joseph Puglisi

Inventor： Benjamin Flusberg ,  Jonas Korlach ,  Jeffrey Wegener ,  Tyson A. Clark ,  Igor Vilfan ,  Andrey Kislyuk ,  Stephen Turner ,  Jon Sorenson ,  Kevin Travers ,  Cheryl Heiner ,  Austin B. Tomaney ,  Patrick Marks ,  Jessica Lee ,  Lei Jia ,  Dale Webster ,  John Lyle ,  Jeremiah Hanes ,  Joseph Puglisi

IPC: C12Q1/68

CPC classification number: C12Q1/6869 ,  C12Q1/6837 ,  C12Q1/6858 ,  C12Q1/6874 ,  C12Q1/689 ,  C12Q2600/154 ,  C12Q2537/164 ,  C12Q2527/113 ,  C12Q2521/101 ,  C12Q2525/307 ,  C12Q2525/117

Abstract: Methods, compositions, and systems are provided for characterization of modified nucleic acids. In certain preferred embodiments, single molecule sequencing methods are provided for identification of modified nucleotides within nucleic acid sequences. Modifications detectable by the methods provided herein include chemically modified bases, enzymatically modified bases, abasic sites, non-natural bases, secondary structures, and agents bound to a template nucleic acid.

Abstract translation: 提供了方法，组合物和系统用于表征修饰的核酸。 在某些优选实施方案中，提供单分子测序方法用于鉴定核酸序列内的修饰的核苷酸。 通过本文提供的方法可检测的修饰物包括化学修饰的碱基，酶修饰的碱基，脱碱基位点，非天然碱基，二级结构和与模板核酸结合的试剂。

公开(公告)号：US20100169026A1

公开(公告)日：2010-07-01

申请号：US12592284

申请日：2009-11-20

Applicant: Jon Sorenson ,  Susan Tang ,  Patrick Marks ,  Chen-Shan Chin

Inventor： Jon Sorenson ,  Susan Tang ,  Patrick Marks ,  Chen-Shan Chin

IPC: G06F19/00 ,  G06F17/18

CPC classification number: G06F19/22

Abstract: The present invention is generally directed to powerful and flexible methods and systems for consensus sequence determination from replicate biomolecule sequence data. It is an object of the present invention to improve the accuracy of consensus biomolecule sequence determination from replicate sequence data by providing methods for assimilating replicate sequence into a final consensus sequence more accurately than any one-pass sequence analysis system.

Abstract translation: 本发明通常涉及用于从复制生物分子序列数据进行共有序列确定的强大且灵活的方法和系统。 本发明的目的是通过提供比任何一次序列分析系统更准确地将重复序列同化到最终共有序列中的方法来提高从重复序列数据确定共有生物分子序列的准确性。

公开(公告)号：US20100075309A1

公开(公告)日：2010-03-25

申请号：US12413226

申请日：2009-03-27

Applicant: Kenneth Mark Maxham ,  Jon Sorenson ,  John Eid ,  Patrick Marks ,  Kevin Travers

Inventor： Kenneth Mark Maxham ,  Jon Sorenson ,  John Eid ,  Patrick Marks ,  Kevin Travers

IPC: C12Q1/68 ,  G01N21/75 ,  C12Q1/48 ,  C12Q1/00 ,  C12Q1/44 ,  G01N33/48 ,  G01N21/76 ,  C12P19/34 ,  G06F19/00

CPC classification number: C12Q1/6869 ,  G01N2021/7786 ,  Y10T436/143333 ,  C12Q2525/301 ,  C12Q2533/101 ,  C12Q2537/149 ,  C12Q2565/631 ,  C12Q2525/307 ,  C12Q2525/191

Abstract: Methods, devices, and systems for performing intermittent detection during analytical reactions are provided. Such methods facilitate collection of reaction data from disparate reaction times. Further, such methods are useful for reducing photo-induced damage of one or more reactants in an illuminated analytical reaction at a given reaction time. In preferred embodiments, the reaction mixture is subjected to at least one illuminated and non-illuminated period and allowed to proceed such that the time in which the reaction mixture is illuminated is less than a photo-induced damage threshold period.

公开(公告)号：US20090024331A1

公开(公告)日：2009-01-22

申请号：US12134186

申请日：2008-06-05

Applicant: Austin B. Tomaney ,  Kenneth Mark Maxham ,  David Holden ,  Kevin Hester ,  Devon Murphy ,  Patrick Marks

Inventor： Austin B. Tomaney ,  Kenneth Mark Maxham ,  David Holden ,  Kevin Hester ,  Devon Murphy ,  Patrick Marks

IPC: G01N33/68 ,  G01J3/28

CPC classification number: C12Q1/6869 ,  G06F19/22 ,  C12Q2563/107

Abstract: Computer implemented methods, and systems performing such methods for processing signal data from analytical operations and systems, and particularly in processing signal data from sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g., genomes or fragments thereof.

Abstract translation: 计算机实现的方法和执行这种方法的系统用于处理来自分析操作和系统的信号数据，特别是处理来自逐个引入过程的信号数据，以鉴定模板核酸和较大核酸分子的核苷酸序列，例如基因组或 片段。