公开(公告)号：US20190026428A1

公开(公告)日：2019-01-24

申请号：US15872655

申请日：2018-01-16

申请人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

发明人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

IPC分类号： G06F19/22 ,  G06F9/54 ,  G06F17/30 ,  G06F19/24 ,  G06F19/28

摘要： Systems, platforms, methods and media for providing genomic services are disclosed. In one example, a genomic services platform comprises a network interface through which are received genomic sequence reads derived from a biological sample obtained from a user The platform also includes a bioinformatics processing pipeline including a read alignment module configured to generate observed sequence data by aligning the sequence reads relative to a reference sequence, a variant calling module operative to identify observed variants in the observed sequence data, and a variant refinement module for producing a set of refined variants associated with the user. A variant imputation module produces a set of imputed variants associated with the user, and a variant storage module disposed to receive a query from network infrastructure of a partner application provider and to provide selected ones of the refined or imputed variants in response to the query.

公开(公告)号：US20190026433A1

公开(公告)日：2019-01-24

申请号：US15853615

申请日：2017-12-22

申请人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

发明人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

IPC分类号： G06F19/28 ,  G06F19/22 ,  G06F19/24

摘要： Systems, platforms, methods and media for providing genomic services are disclosed. In one example, a platform comprises a network interface, in communication with a sequencing laboratory, through which are received genomic sequence reads derived from a biological sample obtained from a user, and a bioinformatics processing pipeline. The pipeline includes a read alignment module configured to generate observed sequence data by aligning the sequence reads relative to a reference sequence, a variant calling module operative to identify observed variants in the observed sequence data, a genomic data storage containing at least the observed variants in the observed sequence data, and a variant storage module disposed to receive a query from network infrastructure of a partner application provider and to provide genomic information based on or derived from the observed variants in response to the query.

公开(公告)号：US20190206512A1

公开(公告)日：2019-07-04

申请号：US15872756

申请日：2018-01-16

申请人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

发明人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

IPC分类号： G16B30/10 ,  C12Q1/686 ,  G16B50/00 ,  G16B40/00

CPC分类号： G16B30/10 ,  C12Q1/686 ,  G06F7/14 ,  G06F8/31 ,  G06F8/34 ,  G06F9/4881 ,  G06F9/5038 ,  G06F16/13 ,  G06N7/005 ,  G16B20/00 ,  G16B30/00 ,  G16B40/00 ,  G16B50/00

摘要： Systems, platforms, methods and media for providing genomic services axe disclosed. In one example, a system for providing genomic services comprises genomic sequencing equipment configured to generate sequence reads based upon a biological sample obtained from a user, store the sequence reads in a FASTQ storage file, and communicate the FASTQ file electronically to a recipient. The system also includes a genomic services platform which includes a network interface through which the sequence reads are received, and a bioinformatics processing pipeline. The bioinformatics processing pipeline includes a read alignment module configured to generate observed sequence data, and a variant calling module is operative to identify observed variants in the observed sequence data. A variant storage module is disposed to receive a query from network infrastructure of a partner application provider and to provide selected ones of refined variants in response to a query.

公开(公告)号：US20190026429A1

公开(公告)日：2019-01-24

申请号：US15872784

申请日：2018-01-16

申请人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

发明人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

IPC分类号： G06F19/22 ,  G06F19/24 ,  G06F7/14 ,  G06F17/30 ,  G06N7/00

摘要： Systems, platforms, methods and media for providing genomic services are disclosed. In one example, a genomic services platform comprises a network interface through which genomic sequence reads derived from a biological sample obtained from a user are received. The platform also includes a bioinformatics processing pipeline that includes a read alignment module configured to receive a genomics file from genomic sequencing equipment and use data contained therein to generate observed sequence data by aligning the sequence reads relative to a reference sequence. A variant calling module identifies observed variants in the observed sequence data and stores the observed variants in a variant calling file. A variant refinement module produces genotype data including a set of refined variants associated with the user, and a variant imputation module produces a set of imputed variants associated with the user. The variant imputation module can separate the genotype data into high-quality and low-quality genotypes based on a genotype quality.

公开(公告)号：US20190026641A1

公开(公告)日：2019-01-24

申请号：US15872731

申请日：2018-01-16

申请人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

发明人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

IPC分类号： G06N7/00 ,  G06F19/22 ,  G06F17/18 ,  G06N99/00

摘要： Systems, platforms, methods and media for providing genomic services are disclosed. In one example, a genomic services platform comprises a network interface through which are received genomic sequence reads derived from a biological sample obtained from a user. The platform also includes a bioinformatics processing pipeline including a read alignment module configured to generate observed sequence data by aligning the sequence reads relative to a reference sequence, a variant calling module operative to identify observed variants in the observed sequence data, and a variant refinement module for producing genotype data including a set of refined variants associated with the user. A variant imputation module produces a set of imputed variants associated with the user, and is configured to receive, as input, at least some of the genotype data and separate the genotype data into high-quality and low-quality genotypes based on a genotype quality.

公开(公告)号：US20190026156A1

公开(公告)日：2019-01-24

申请号：US15872793

申请日：2018-01-16

申请人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

发明人： James Lu ,  Jim Chou ,  William Lee ,  Chris Williams ,  James Warren ,  Ruomu Jiang

IPC分类号： G06F9/50 ,  G06F19/28 ,  G06F19/18 ,  G06F8/30 ,  G06F8/34 ,  G06F9/48

摘要： Systems, platforms, methods and media for providing genomic services are disclosed. In one example, a genomic services platform comprises a network interface through which genomic sequence reads derived from a biological sample are received. The platform also includes a bioinformatics processing pipeline that comprises a read alignment module configured to generate observed sequence data by aligning the sequence reads relative to a reference sequence, a variant calling module operative to identify observed variants in the observed sequence data, and a variant refinement module for producing a set of refined variants associated with the biological sample. A variant imputation module produces a set of imputed variants associated with the user and a variant storage module, operating on a server-less framework, is disposed to receive a query from network infrastructure of a partner application provider and to provide selected ones of the refined or imputed variants m response to the query.

公开(公告)号：US06418549B1

公开(公告)日：2002-07-09

申请号：US09351631

申请日：1999-07-12

申请人： Kannan Ramchandran ,  Jim Chou ,  Igor Kozintsev

发明人： Kannan Ramchandran ,  Jim Chou ,  Igor Kozintsev

IPC分类号： G06F1100

CPC分类号： H04L1/006 ,  H03M13/03 ,  H03M13/07 ,  H03M13/09 ,  H03M13/29 ,  H04L1/0041 ,  H04L1/0045 ,  H04L1/0065 ,  H04L1/1819 ,  H04L1/1829 ,  H04L1/1867

摘要： Method and apparatus for image transmission using arithmetic coding, based on continuous error detection uses a controlled amount of added redundancy. A continuous error detection scheme is provided, wherein there is a trade-off between the amount of added redundancy and the time needed to detect an error once it occurs. Herein, there is no need for the cyclic redundancy check (CRC) to wait until an entire block of data has been received and processed before an error can be detected. The invention can be used to great advantage both in the automatic repeat request (ARQ) and other concatenated coding schemes. Errors in the received bit stream are detected by introducing added redundancy, e.g., a forbidden symbol, in the arithmetic coding operation. The forbidden symbol is never intended to be encoded. The redundancy error causes loss of synchronization, which is used to detect errors. If a forbidden symbol gets decoded, it means that an error has occurred. In this invention, there is direct control over the amount of redundancy added vs. the amount of time it takes to detect an error. For image compression systems, by using the invention and ARQ, only one device would suffice both for source compression and channel coding.

摘要翻译： 使用算术编码进行图像传输的方法和装置，基于连续错误检测，使用受控量的附加冗余。 提供了一种连续的错误检测方案，其中在所添加的冗余量与发生错误之后检测错误所需的时间之间存在权衡。 这里，循环冗余校验（CRC）不需要等待，直到在检测到错误之前已经接收和处理了整个数据块。 本发明可以在自动重传请求（ARQ）和其他级联编码方案中有很大的优点。 通过在算术编码操作中引入附加冗余（例如，禁止符号）来检测接收到的比特流中的错误。 禁止的符号从不打算编码。 冗余错误导致同步丢失，用于检测错误。 如果禁止的符号被解码，则意味着发生错误。 在本发明中，可以直接控制所添加的冗余量与检测错误所花费的时间量。 对于图像压缩系统，通过使用本发明和ARQ，只有一个设备对于源压缩和信道编码就足够了。

公开(公告)号：US09071727B2

公开(公告)日：2015-06-30

申请号：US13311345

申请日：2011-12-05

申请人： Jim Chou

发明人： Jim Chou

IPC分类号： H04N7/14

CPC分类号： H04N7/148

摘要： In one embodiment, a method includes receiving at a network device, video from a first endpoint, analyzing the video received from the first endpoint, processing video received from a second endpoint based on the analyzed video to optimize bandwidth between the network device and the first endpoint, and transmitting the processed video to the first endpoint. An apparatus is also disclosed.

摘要翻译： 在一个实施例中，一种方法包括在网络设备处接收来自第一端点的视频，分析从第一端点接收的视频，基于所分析的视频处理从第二端点接收的视频，以优化网络设备与第一端点之间的带宽 端点，并将经处理的视频发送到第一端点。 还公开了一种装置。

公开(公告)号：US20130141518A1

公开(公告)日：2013-06-06

申请号：US13311345

申请日：2011-12-05

申请人： Jim Chou

发明人： Jim Chou

IPC分类号： H04N7/14

CPC分类号： H04N7/148

摘要： In one embodiment, a method includes receiving at a network device, video from a first endpoint, analyzing the video received from the first endpoint, processing video received from a second endpoint based on the analyzed video to optimize bandwidth between the network device and the first endpoint, and transmitting the processed video to the first endpoint. An apparatus is also disclosed.

摘要翻译： 在一个实施例中，一种方法包括在网络设备处接收来自第一端点的视频，分析从第一端点接收的视频，基于所分析的视频处理从第二端点接收的视频，以优化网络设备与第一端点之间的带宽 端点，并将经处理的视频发送到第一端点。 还公开了一种装置。

公开(公告)号：US08995306B2

公开(公告)日：2015-03-31

申请号：US13066086

申请日：2011-04-06

申请人： Rohit Puri ,  Jim Chou

发明人： Rohit Puri ,  Jim Chou

IPC分类号： H04L12/16 ,  H04Q11/00 ,  H04N21/2343 ,  H04L1/00 ,  H04L12/18 ,  H04N7/15 ,  H04N21/2365 ,  H04N21/262 ,  H04L29/06

CPC分类号： H04N7/152 ,  H04L1/0041 ,  H04L1/0045 ,  H04L1/0057 ,  H04L12/1822 ,  H04L12/1863 ,  H04L65/403 ,  H04L65/605 ,  H04L2001/0096 ,  H04N7/15 ,  H04N21/2343 ,  H04N21/2365 ,  H04N21/26275

摘要： In one embodiment, a method includes receiving at a multimedia transformation unit, media streams from a plurality of endpoints, transmitting audio components of the media streams to a multipoint conferencing unit, receiving an identifier from the multipoint conferencing unit identifying one of the media streams as an active speaker stream, processing at the multimedia transformation unit, a video component of the active speaker stream, and transmitting the active speaker stream to one or more of the endpoints without transmitting the video component to the multipoint conferencing unit. An apparatus is also disclosed.

摘要翻译： 在一个实施例中，一种方法包括在多媒体变换单元处接收来自多个端点的媒体流，将媒体流的音频分量传输到多点会议单元，从多点会议单元接收标识媒体流中的一个媒体流的标识符为 主动扬声器流，多媒体变换单元处理，活动扬声器流的视频分量，以及将活动扬声器流发送到一个或多个端点，而不将视频组件传输到多点会议单元。 还公开了一种装置。