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A method for predicting SNP sites affecting biological function of long non-coding RNAs

A non-coding and site-based technology, applied in the field of predicting SNP sites that affect the biological functions of long non-coding RNAs, can solve problems such as unmeasurable impacts

Active Publication Date: 2018-12-07
INSITUTE OF BIOPHYSICS CHINESE ACADEMY OF SCIENCES
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

The SNP site only involves the change of one base, and it is currently impossible to measure the impact of one base change

Method used

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  • A method for predicting SNP sites affecting biological function of long non-coding RNAs
  • A method for predicting SNP sites affecting biological function of long non-coding RNAs
  • A method for predicting SNP sites affecting biological function of long non-coding RNAs

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0055] Example 1. Method for obtaining SNP sites that have an important impact on long non-coding RNAs

[0056] 1. Construction of a complete data set of long non-coding RNA

[0057] 1. Collect and organize long non-coding RNA data

[0058]From the published literature "Cabili et al., Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses.2011.Genes Dev25:1915-27" and the GENCODE public database (the literature of the public GENCODE public database is as follows: GENCODE.Harrow et al., GENCODE : the reference human genome annotation for The ENCODE Project.Genome Research.2012.22:1760-74., the query URL of the GENCODE public database is as follows: http: / / www.gencodegenes.org / ) to collect annotation data of long non-coding RNAs, including Name, genome location, sequence and other information to obtain long non-coding RNA data sets.

[0059] 2. Filter the long non-coding RNA data set

[0060] From the long non-coding ...

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Abstract

The invention discloses a method for SNP locus predicting and influencing the biological function of long non-coding RNA. The method firstly establishes the recognition and significance evaluation method of the specific motif sequence which can be identified by the RNA binding protein contained in the long non-coding RNA, and then evaluates the influence caused by the SNP locus in the specific sequences based on the method. By using the method, SNP locus with important influence on the biological function of the long non-coding RNA can be found, reliable functional research leads are providedfor experimental personnel, and guidance is also provided for clinical application of long non-coding RNA.

Description

technical field [0001] The invention relates to the fields of molecular biology, functional genomics and bioinformatics, and more specifically relates to a method for predicting SNP sites that affect long non-coding RNA biological functions. Background technique [0002] The release of the draft human genome in 2001 was a milestone in the success of the Human Genome Project and opened the prelude to functional genome research. A large number of genes and functional elements contained in the genome need to be further identified and studied. In 2012, the Encyclopedia of DNA Components Project (ENCODE) released a batch of research data, which showed that about 75% of the regions of human genes can be transcribed, while the coding regions that can encode proteins account for less than 3% of the human genome, indicating that The transcripts of the human genome contain a large number of unknown non-coding RNAs. As early as 1989, a new type of non-coding RNA, long non-coding RNA,...

Claims

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): G06F19/22G06F19/20
CPCG16B25/00G16B30/00
Inventor 陈小伟范珍陈润生
Owner INSITUTE OF BIOPHYSICS CHINESE ACADEMY OF SCIENCES
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