Storage, transfer and compression of next generation sequencing data

A sequencing data, next-generation technology, applied in transmission systems, electrical digital data processing, special data processing applications, etc., can solve problems such as incompatibility, rewriting, etc., to reduce startup delay, size, and application response. effect of time

Inactive Publication Date: 2018-03-27
GENEFORMICS DATA SYST LTD
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

However, ADAM and similar schemes are incompatible with BAM and require rewriting of file operations in all relevant applications

Method used

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  • Storage, transfer and compression of next generation sequencing data
  • Storage, transfer and compression of next generation sequencing data
  • Storage, transfer and compression of next generation sequencing data

Examples

Experimental program
Comparison scheme
Effect test

Embodiment approach

[0320] Figure 4 The device can be implemented in a package such as the CentOS RPM package for installation on user-supplied hardware. Alternatively, Figure 4 devices can be implemented in hardware.

[0321] refer to Figure 27 , Figure 27 is according to an embodiment of the present invention Figure 4 A diagram of a hardware form 500 of the device, showing a front panel interface 520 and a rear panel interface 540. Device 500 in Figure 27 is shown housed in a 1U rack mount enclosure.

[0322] In an embodiment of the invention, device 500 has the specifications provided in Table I below. Front panel 520 includes the interfaces provided in Table II below. The rear panel 540 includes the interfaces provided in Table III below.

[0323]

[0324]

[0325]

[0326]

[0327]

[0328] Device 500 has the following four network interfaces:

[0329] Two 100Mpbs / 1Gbps / 10Gbps Ethernet SFP+ interfaces on the rear panel, named eth0 and eth1; and

[0330] Two 10...

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Abstract

A computer appliance includes a front-end interface communicating with a client computer, a back-end interface communicating with a storage, a compressor receiving native next generation sequencing (NGS) data from an application running on the client computer via the front-end interface, the application being programmed to process native NGS data, adding a compressed form of the native NGS data into a portion of an encoded data file or data object, and storing the portion of the encoded data file or data object in the storage via the back-end interface, and a decompressor receiving a portion of an encoded data file or data object from the storage via the back-end interface, decompressing the portion of the encoded data file or data object to generate therefrom native NGS data, and transmitting the native NGS data to the client via the front-end interface, for use by the application running on the client.

Description

[0001] Priority Citation to Provisional Application [0002] This application claims priority to U.S. Provisional Application No. 62 / 164,611, filed May 21, 2015, by Shai Lubliner, Arie Keshet, and Eran Segal, entitled "COMPRESSION OF GENOMICS FILES" by The content of this application is hereby incorporated in its entirety. [0003] This application also claims priority to U.S. Provisional Application No. 62 / 164,651, entitled "STORAGE OF COMPRESSED GENOMICS FILES," filed May 21, 2015, by inventors Danny Sade and Arie Keshet , the content of this application is hereby incorporated in its entirety. technical field [0004] The present invention relates to efficient storage and transmission of next generation sequencing data. Background technique [0005] Over the past decade, tremendous advances in technology and next generation sequencing The adoption of (NGS) has brought down the cost of sequencing rapidly to the point that the price of high-coverage sequencing of the whol...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F17/30G06F19/22G06F19/28G16B30/10G16B50/50
CPCG16B30/00G16B50/00G16B30/10G16B50/50H04L67/5651H03M7/60H03M7/70H04L67/06H04L67/1097
Inventor 达恩·萨德沙伊·卢布林尔阿里·凯舍特埃兰·西格尔伊塔·西拉
Owner GENEFORMICS DATA SYST LTD
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