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Proton-based transcriptome sequencing data comparison and analysis method and system

A technology for transcriptome sequencing and sequencing data, which is applied in the field of biological information to achieve the effect of improving accuracy and reliability

Inactive Publication Date: 2015-05-27
BGI TECH SOLUTIONS
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Problems solved by technology

In addition, mRNA sequencing data from different experiments (which may be samples from different tissues or under different experimental conditions) may also need to be compared, and analyzing data from a relatively large number of mRNAs is a rather complicated process

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  • Proton-based transcriptome sequencing data comparison and analysis method and system
  • Proton-based transcriptome sequencing data comparison and analysis method and system
  • Proton-based transcriptome sequencing data comparison and analysis method and system

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Embodiment Construction

[0058] The present invention will be described more fully below in conjunction with the accompanying drawings and preferred embodiments. It should be understood that the preferred embodiments described herein are only used to illustrate and explain the present invention, and are not intended to limit the present invention.

[0059] The relative arrangements of components and steps, numerical expressions and numerical values ​​set forth in these embodiments do not limit the present invention unless otherwise stated. Techniques, methods and devices known to those of ordinary skill in the art may not be discussed in detail, but where appropriate, techniques, methods and devices should be considered a part of this description.

[0060] 1.1 Sequencing

[0061] Collect samples from different tissues or under different experimental conditions, and sequence them to obtain the data required for comparative analysis. In one embodiment, the Ion Proton platform is used for sequencing, an...

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Abstract

The invention provides a Proton-based transcriptome sequencing data comparison and analysis method and system. The method comprises the following steps: acquiring original sequencing data of at least two transcriptomes of a certain species by virtue of a Proton sequencing platform; filtering unqualified data to obtain clean reads; performing first-step analysis and second-step analysis, wherein the first-step analysis comprises the steps of comparing the clean reads with a reference genome of the species respectively, performing transcript quantitative analysis, screening significantly differently expressed genes and performing significantly differently expressed gene function analysis; the second-step analysis comprises the steps of comparing the clean reads to the reference genome of the species respectively, performing alternative splicing analysis, performing gene structure optimization analysis, performing new transcript prediction, performing SNP (Single Nucleotide Polymorphism) analysis and performing gene fusion detection. According to the method and the system, the transcriptome sequencing data comparison and analysis accuracy and reliability can be improved.

Description

technical field [0001] The present invention relates to the technical field of biological information, in particular to a method and system for comparative analysis of transcriptome sequencing data based on Proton. Background technique [0002] Transcriptome broadly refers to the collection of all transcripts in a cell under certain physiological conditions, including messenger RNA (mRNA), ribosomal RNA, transfer RNA and non-coding RNA; in a narrow sense, it refers to the collection of all messenger RNA. Since the transcriptome represents the gene expression state of an organism at a certain moment, the study of the transcriptome has great biological significance. [0003] A gene can have multiple differently spliced ​​transcripts that produce mRNA, and mRNA can also be produced from other regions on the genome. Sequencing technology is a powerful tool for investigating and understanding mRNA expression profiles. Compared with the traditional chip hybridization platform, t...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/22
Inventor 庄振华袁永娴马寿福
Owner BGI TECH SOLUTIONS
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