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Circular RNA identification and expression quantification analysis method

An analysis method, a circular technology, applied in the field of gene detection, can solve problems such as inability to find circRNA

Active Publication Date: 2020-05-22
SHANGHAI PASSION BIOTECHNOLOGY CO LTD
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0003] Existing chip-based circRNA analysis methods rely on known circRNA information and cannot discover new circRNAs

Method used

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  • Circular RNA identification and expression quantification analysis method
  • Circular RNA identification and expression quantification analysis method
  • Circular RNA identification and expression quantification analysis method

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Experimental program
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Embodiment Construction

[0047] An analysis method for circular RNA identification and expression quantification, comprising the steps of:

[0048] Step 1, sequencing data filtering step:

[0049] Use fastp software to remove adapters and low-quality sequences in the sequencing results:

[0050] Fastp uses PE reads overlap information to automatically identify adapter sequences, with higher accuracy and removal efficiency. At the same time, the length of 5 bases was used as a window, and the window was slid from the 3' end to the 5' end, and the windows with an average quality less than 20 in the window were cut off. Finally, reads with a length greater than 50 are retained.

[0051] The sequencing data after removing adapters and low-quality sequences were quality-controlled using fastqc software:

[0052] According to the sequencing characteristics of RNASeq, the four lines of the base distribution of the sequencing data should be: AT parallel and close, GC parallel and close; the overall distrib...

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Abstract

The invention discloses a circular RNA identification and expression quantification analysis method, which is characterized by comprising a series of a sequencing data filtering step, a sequencing data comparison step, a circular RNA connection point identification step, a difference analysis step, a gene annotation step and an enrichment analysis step. The analysis method provided by the invention can help to discover new circRNA information, and further performs circular RNA identification and expression quantitative analysis.

Description

technical field [0001] The invention relates to the field of gene detection, in particular to an analysis method for circular RNA identification and expression quantification. Background technique [0002] circRNA (circular RNA, circular RNA) is a type of non-coding RNA molecule with a closed circular structure, without a 5′ cap structure and a 3′ poly(A) structure, and is mainly located in the cytoplasm or stored in exosomes, and is not subject to Influenced by RNA exonuclease, the expression is more stable and not easy to degrade, and it has been proved that it exists widely in a variety of eukaryotic organisms. Most circRNAs are formed by circularization of exons, and some circRNAs are lariat structures formed by circularization of introns. At the same time, because circRNA contains a large number of miRNA response elements (MREs), it can form the catalytic core of RNA-induced silencing complex (RISC) with AGO protein, which eventually leads to the degradation of circRNA...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B30/00G16B50/30
CPCG16B30/00G16B50/30Y02A90/10
Inventor 沈立孙子奎
Owner SHANGHAI PASSION BIOTECHNOLOGY CO LTD
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