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LncRNA (long noncoding ribonucleic acid) excavating method based on gene sequence expression analysis

A gene sequence, high expression technology, applied in the biological field, can solve the problem that the expression level of long non-coding RNA cannot be determined

Inactive Publication Date: 2012-09-26
SHANGHAI CLUSTER BIOTECH
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Problems solved by technology

[0008] In terms of innovation, our method solves the problem that the expression level of long non-coding RNA cannot be determined by conventional methods

Method used

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  • LncRNA (long noncoding ribonucleic acid) excavating method based on gene sequence expression analysis
  • LncRNA (long noncoding ribonucleic acid) excavating method based on gene sequence expression analysis

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Embodiment Construction

[0016] The present invention will take a cancer disease as an example to introduce the specific implementation steps of the present invention

[0017] Step 1: Collect all human full-length mRNA sequence data. The data comes from the NCBI database (http: / / www.ncbi.nlm.nih.gov / nuccore).

[0018] Step 2: Removal of mRNA sequences containing protein-coding exons.

[0019] Step 3: Organize long non-coding RNAs larger than 200bp to form a searchable database.

[0020] Step 4: Search the existing gene expression sequence analysis data to identify highly expressed long non-coding RNAs. We use computer programs to generate virtual digestion results from the long non-coding RNA sequence database. If a restriction does not return a result, the restriction site is automatically added in front of the sequence to ensure the comprehensiveness of the results. The program records important parameters during the entire analysis process, such as the resulting tag sequence of enzyme digestion,...

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Abstract

The invention finds a bioinformatics method according to gene sequence expression and gene prediction algorithms, wherein the method can be used for directly predicting and quantifying a long noncoding RNA (ribonucleic acid) and directly locking the LncRNA for further experimental verification. The method disclosed by the invention mainly comprises the following process: step one, collecting all the full-length mRNA (messenger ribonucleic acid) sequence data of a person; step two, removing the mRNA sequence comprising an extron of a coding protein; step three, forming a retrievable database by using LncRNA more than 200bp, and; step four, searching the existing gene expression sequence analysis data to identify over-expressed LncRNA from the analysis data; and step five, carrying out experimental verification. Thus, the over-expressed LncRNA in a specific cell tissue is predicted finally..

Description

technical field [0001] The invention belongs to the field of biotechnology and relates to the identification of long noncoding RNA (Longnoncoding RNA). Background technique [0002] The invention is a new method suitable for lncRNA identification. It is suitable for biomedical research or basic biological research of LncRNA. [0003] Now, more and more people are starting to focus on microRNA (micro ribonucleic acid) because of their function of degrading target messenger RNA and inhibiting translation, thereby regulating gene expression. However, recent studies have found that there is another type of non-coding RNA (long noncoding RNA) with a relatively long sequence that also has the function of regulating gene expression. For example, the macroRNAs Xist and Air in mice are 18 and 108 kb in size, respectively. Xist induces silencing of most genes on the inactive X chromosome by interacting with chromosomes, while Air is associated with the silencing of the paternal Igf...

Claims

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Application Information

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IPC IPC(8): G06F19/20
Inventor 曾华宗
Owner SHANGHAI CLUSTER BIOTECH
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