公开(公告)号：US09864846B2

公开(公告)日：2018-01-09

申请号：US14018069

申请日：2013-09-04

Applicant: LIFE TECHNOLOGIES CORPORATION

Inventor： Charles Sugnet ,  Simon Cawley ,  Mohit Gupta ,  Iztok Marjanovic ,  Mark Beauchemin ,  Todd Rearick

IPC: G06F19/10 ,  G11C17/00 ,  H03M7/30 ,  G06F19/00

CPC classification number: G06F19/702 ,  G06F19/709 ,  H03M7/30

Abstract: A compression method includes: measuring a waveform associated with a chemical event occurring on a sensor array, wherein the waveform comprises a plurality of measured values and the chemical event is indicative of a number of nucleotide incorporations in a genetic sequencing reaction; applying a first compression process to the waveform, the first compression process including a truncating of data corresponding to a portion of the waveform that is not related to nucleotide incorporations in the genetic sequencing reaction; and applying a second compression process to the waveform, the second compression process including a data substitution process that replaces at least a portion of the waveform with a plurality of coefficients representative of the portion of the waveform.

公开(公告)号：US09646132B2

公开(公告)日：2017-05-09

申请号：US13892116

申请日：2013-05-10

Applicant: LIFE TECHNOLOGIES CORPORATION

Inventor： Todd Rearick

IPC: G01N33/48 ,  G01N33/50 ,  G06F19/12 ,  C12Q1/68 ,  G06F19/20 ,  G06F19/22

CPC classification number: G06F19/12 ,  C12Q1/6874 ,  G06F19/20 ,  G06F19/22 ,  C12Q2537/165 ,  C12Q2563/113 ,  C12Q2563/116

Abstract: A method of modeling a background signal when sequencing a polynucleotide strand using sequencing-by-synthesis includes: flowing a series of nucleotide flows onto a reactor array having multiple reaction confinement regions, one or more copies of the polynucleotide strand being located in a loaded reaction confinement region of the reactor array, the loaded reaction confinement region being located in a vicinity of one or more neighboring reaction confinement regions that may or may not be loaded; receiving output signals from the reactor array; and modeling a background signal for the loaded reaction confinement region using the received output signals and a model adapted to account at least for an exchange of ions between the one or more neighboring reaction confinement regions and a headspace adjacent the loaded reaction confinement region and the one or more neighboring reaction confinement regions.

公开(公告)号：US09270264B2

公开(公告)日：2016-02-23

申请号：US14333754

申请日：2014-07-17

Applicant: LIFE TECHNOLOGIES CORPORATION

Inventor： Jeremy Jordan ,  Todd Rearick

IPC: H03L7/00 ,  G05F1/10 ,  G05F3/02 ,  H03K17/16 ,  G01N27/414 ,  H03K19/003 ,  G06F1/06 ,  G06F1/26

CPC classification number: H03K17/162 ,  G01N27/4145 ,  G06F1/06 ,  G06F1/26 ,  H03K19/00346

Abstract: A system including a power supply and a clock circuitry to generate a plurality of clock signals. Each clock signal is synchronous with a primary clock signal. First, second, and third clock signals of the plurality of clock signals are asynchronous to each other. The system further includes a plurality of switches. Each switch of the plurality of switches is communicatively coupled to the power supply and the clock circuitry. A first switch of the plurality of switches receives the first clock signal, a second switch of the plurality of switches receives the second clock signal, and a third switch of the plurality of switches receives the third clock signal.

Abstract translation: 一种包括电源和时钟电路以产生多个时钟信号的系统。 每个时钟信号与主时钟信号同步。 多个时钟信号的第一，第二和第三时钟信号彼此异步。 该系统还包括多个开关。 多个开关中的每个开关通信地耦合到电源和时钟电路。 多个开关的第一开关接收第一时钟信号，多个开关中的第二开关接收第二时钟信号，并且多个开关中的第三开关接收第三时钟信号。

公开(公告)号：US08786331B2

公开(公告)日：2014-07-22

申请号：US13801709

申请日：2013-03-13

Applicant: Life Technologies Corporation

Inventor： Jeremy Jordan ,  Todd Rearick

IPC: H03L7/00 ,  G01N27/414 ,  H03K17/16 ,  H03K19/003

CPC classification number: H03K17/162 ,  G01N27/4145 ,  G06F1/06 ,  G06F1/26 ,  H03K19/00346

Abstract: A system including a power supply and a clock circuitry to generate a plurality of clock signals. Each clock signal is synchronous with a primary clock signal. First, second, and third clock signals of the plurality of clock signals are asynchronous to each other. The system further includes a plurality of switches. Each switch of the plurality of switches is communicatively coupled to the power supply and the clock circuitry. A first switch of the plurality of switches receives the first clock signal, a second switch of the plurality of switches receives the second clock signal, and a third switch of the plurality of switches receives the third clock signal.

Abstract translation: 一种包括电源和时钟电路以产生多个时钟信号的系统。 每个时钟信号与主时钟信号同步。 多个时钟信号的第一，第二和第三时钟信号彼此异步。 该系统还包括多个开关。 多个开关中的每个开关通信地耦合到电源和时钟电路。 多个开关的第一开关接收第一时钟信号，多个开关中的第二开关接收第二时钟信号，并且多个开关中的第三开关接收第三时钟信号。

公开(公告)号：US20240029816A1

公开(公告)日：2024-01-25

申请号：US18306419

申请日：2023-04-25

Applicant: Life Technologies Corporation

Inventor： Todd Rearick

IPC: G16B5/00 ,  C12Q1/6874 ,  G16B25/00 ,  G16B30/00

CPC classification number: G16B5/00 ,  C12Q1/6874 ,  G16B25/00 ,  G16B30/00

Abstract: A method of modeling a background signal when sequencing a polynucleotide strand using sequencing-by-synthesis includes: flowing a series of nucleotide flows onto a reactor array having multiple reaction confinement regions, one or more copies of the polynucleotide strand being located in a loaded reaction confinement region of the reactor array, the loaded reaction confinement region being located in a vicinity of one or more neighboring reaction confinement regions that may or may not be loaded; receiving output signals from the reactor array; and modeling a background signal for the loaded reaction confinement region using the received output signals and a model adapted to account at least for an exchange of ions between the one or more neighboring reaction confinement regions and a headspace adjacent the loaded reaction confinement region and the one or more neighboring reaction confinement regions.

公开(公告)号：US11567029B2

公开(公告)日：2023-01-31

申请号：US14162612

申请日：2014-01-23

Applicant: LIFE TECHNOLOGIES CORPORATION

Inventor： John Nobile ,  George T. Roth ,  Todd Rearick ,  Jonathan M. Schultz ,  Jonathan Rothberg ,  David Marran

IPC: G01N27/30 ,  G01N27/414 ,  B01L3/00

Abstract: The invention is directed to apparatus and methods for delivering multiple reagents to, and monitoring, a plurality of analytical reactions carried out on a large-scale array of electronic sensors under minimal noise conditions. In one aspect, the invention provides method of improving signal-to-noise ratios of output signals from the electronic sensors sensing analytes or reaction byproducts by subtracting an average of output signals measured from neighboring sensors where analyte or reaction byproducts are absent. In other aspects, the invention provides an array of electronic sensors integrated with a microwell array for confining analytes and/or particles for analytical reactions and a method for identifying microwells containing analytes and/or particles by passing a sensor-active reagent over the array and correlating sensor response times to the presence or absence of analytes or particles. Such detection of analyte- or particle-containing microwells may be used as a step in additional noise reduction methods.

公开(公告)号：US10679724B2

公开(公告)日：2020-06-09

申请号：US15498591

申请日：2017-04-27

Applicant: LIFE TECHNOLOGIES CORPORATION

Inventor： Todd Rearick

IPC: G01N33/48 ,  G01N33/50 ,  G16B5/00 ,  C12Q1/6874 ,  G16B25/00 ,  G16B30/00

Abstract: A method of modeling a background signal when sequencing a polynucleotide strand using sequencing-by-synthesis includes: flowing a series of nucleotide flows onto a reactor array having multiple reaction confinement regions, one or more copies of the polynucleotide strand being located in a loaded reaction confinement region of the reactor array, the loaded reaction confinement region being located in a vicinity of one or more neighboring reaction confinement regions that may or may not be loaded; receiving output signals from the reactor array; and modeling a background signal for the loaded reaction confinement region using the received output signals and a model adapted to account at least for an exchange of ions between the one or more neighboring reaction confinement regions and a headspace adjacent the loaded reaction confinement region and the one or more neighboring reaction confinement regions.

公开(公告)号：US09958414B2

公开(公告)日：2018-05-01

申请号：US14160472

申请日：2014-01-21

Applicant: LIFE TECHNOLOGIES CORPORATION

Inventor： Jonathan Rothberg ,  Todd Rearick

IPC: G01N27/403 ,  G01N27/414 ,  C12Q1/68

CPC classification number: G01N27/4145 ,  C12Q1/6874 ,  G01N27/4148

Abstract: Methods and apparatus relating to FET arrays including large FET arrays for monitoring chemical and/or biological reactions such as nucleic acid sequencing-by-synthesis reactions. Some methods provided herein relate to improving signal (and also signal to noise ratio) from released hydrogen ions during nucleic acid sequencing reactions.

公开(公告)号：US20160061772A1

公开(公告)日：2016-03-03

申请号：US14703752

申请日：2015-05-04

Applicant: Life Technologies Corporation

Inventor： Jonathan M. ROTHBERG ,  Todd Rearick

IPC: G01N27/414

CPC classification number: G01N27/4145 ,  C12Q1/6874 ,  G01N27/4148

Abstract: Methods and apparatus relating to FET arrays including large FET arrays for monitoring chemical and/or biological reactions such as nucleic acid sequencing-by-synthesis reactions. Some methods provided herein relate to improving signal (and also signal to noise ratio) from released hydrogen ions during nucleic acid sequencing reactions.

公开(公告)号：US20150160154A1

公开(公告)日：2015-06-11

申请号：US14569372

申请日：2015-01-21

Applicant: LIFE TECHNOLOGIES CORPORATION

Inventor： Jonathan M. ROTHBERG ,  James Bustillo ,  Mark James Milgrew ,  Jonathan Schultz ,  David Marran ,  Todd Rearick ,  Kim L. Johnson

IPC: G01N27/414 ,  C12Q1/68

CPC classification number: G01N27/4145 ,  C12Q1/6869 ,  C12Q1/6874 ,  G01N27/4148 ,  H01L21/82 ,  C12Q2565/607

Abstract: The invention is directed to apparatus and chips comprising a large scale chemical field effect transistor arrays that include an array of sample-retaining regions capable of retaining a chemical or biological sample from a sample fluid for analysis. In one aspect such transistor arrays have a pitch of 10 μm or less and each sample-retaining region is positioned on at least one chemical field effect transistor which is configured to generate at least one output signal related to a characteristic of a chemical or biological sample in such sample-retaining region. In one embodiment, the characteristic of said chemical or biological sample is a concentration of a charged species and wherein each of said chemical field effect transistors is an ion-sensitive field effect transistor having a floating gate with a dielectric layer on a surface thereof, the dielectric layer contacting said sample fluid and being capable of accumulating charge in proportion to a concentration of the charged species in said sample fluid. In one embodiment such charged species is a hydrogen ion such that the sensors measure changes in pH of the sample fluid in or adjacent to the sample-retaining region thereof. Apparatus and chips of the invention may be adapted for large scale pH-based DNA sequencing and other bioscience and biomedical applications.

Abstract translation: 本发明涉及包括大规模化学场效应晶体管阵列的装置和芯片，其包括能够保留来自样品流体的化学或生物样品用于分析的样品保持区阵列。 在一个方面，这种晶体管阵列具有10μm或更小的间距，并且每个采样保持区域位于至少一个化学场效应晶体管上，该晶体管被配置为产生与化学或生物样品的特性相关的至少一个输出信号 在这样的样品保留区域中。 在一个实施方案中，所述化学或生物样品的特征是带电物质的浓度，并且其中每个所述化学场效应晶体管是离子敏感场效应晶体管，其具有在其表面上具有介电层的浮置栅极， 电介质层与所述样品流体接触并且能够与所述样品流体中的带电物质的浓度成比例地积累电荷。 在一个实施方案中，这种带电物质是氢离子，使得传感器测量样品流体在其样品保持区域中或其附近的pH值的变化。 本发明的装置和芯片可适用于大规模的基于pH的DNA测序和其他生物科学和生物医学应用。