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System and method for aligning genome sequence considering repeats

A base sequence and recombination system technology, applied in sequence analysis, biochemical equipment and methods, microbial measurement/testing, etc., to achieve the effect of improving mapping accuracy and speed

Inactive Publication Date: 2014-05-14
SAMSUNG SDS CO LTD
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  • Description
  • Claims
  • Application Information

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However, methods in the prior art have limitations in meeting these requirements

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  • System and method for aligning genome sequence considering repeats
  • System and method for aligning genome sequence considering repeats
  • System and method for aligning genome sequence considering repeats

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Embodiment Construction

[0020] Hereinafter, specific embodiments of the present invention will be described with reference to the drawings. However, this is just an example, and the present invention is not limited thereto.

[0021] When describing the present invention, if the specific description of the known technology related to the present invention may unnecessarily interfere with the gist of the present invention, the detailed description will be omitted. In addition, the following terms are all defined in consideration of the functions in the present invention, and may vary depending on the intention or custom of the user or operator. Therefore, it should be defined based on the contents of the entire specification.

[0022] The technical idea of ​​the present invention is determined by the claims, and the following embodiments are only a means to effectively convey the technical idea of ​​the present invention to those with ordinary knowledge in the technical field to which the present inve...

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Abstract

A system and a method for aligning a genome sequence considering repeats are provided. According to an embodiment of the present invention, the system for aligning a genome sequence includes a fragment sequence production unit configured to produce a plurality of fragment sequences from a read, a fragment sequence length adjustment unit configured to select the fragment sequences whose mapping repeat numbers in a target sequence exceed a predetermined reference value from the plurality of produced fragment sequences and adjust lengths of the selected fragment sequences until the mapping repeat numbers of the selected fragment sequences reach a value equal to or less than the reference value, and an alignment unit configured to perform global alignment using the fragment sequences having the adjusted lengths.

Description

technical field [0001] An embodiment of the present invention relates to a technique for analyzing the base sequence of a genome. Background technique [0002] The second-generation sequencing (NGS: Next Generation Sequencing) method for producing high-capacity short sequences is rapidly replacing the traditional Sanger (Sanger) sequencing method because of its low cost and the ability to quickly generate data. Also, various NGS sequence recombination programs have been developed with a focus on accuracy. However, with the recent development of second-generation sequencing technology, the cost of producing fragment sequences has been reduced to less than half of the past, and the amount of available data has increased. Therefore, it is necessary to develop a method that can accurately process high-capacity short sequences in a short time Technology. [0003] The first step of sequence recombination is to map the short fragment (read) to the correct position of the referenc...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/18G16B30/10
CPCG16B30/00G16B30/10C12Q1/6869
Inventor 朴旻胥
Owner SAMSUNG SDS CO LTD