Intron retention prediction model establishing method and prediction method thereof

A technology for predicting models and establishing methods, applied in biological neural network models, instruments, biological systems, etc., can solve the problems of restricting technology development, insufficient method robustness, and low method reliability, and achieve the effect of improving learning effects.

Pending Publication Date: 2020-07-03
CENT SOUTH UNIV
View PDF10 Cites 0 Cited by
  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0003] Although the above methods have been successfully applied to real environments, the analysis based on sequence features is more or less limited by the bias caused by intron r

Method used

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
View more

Image

Smart Image Click on the blue labels to locate them in the text.
Viewing Examples
Smart Image
  • Intron retention prediction model establishing method and prediction method thereof
  • Intron retention prediction model establishing method and prediction method thereof
  • Intron retention prediction model establishing method and prediction method thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment Construction

[0059] Such as figure 1 Shown is a schematic flow chart of the method for establishing the intron retention prediction model of the present invention: the method for establishing the intron retention prediction model provided by the present invention includes the following steps:

[0060] S1. Collect simulated data and real data related to intron retention; specifically, the BEER algorithm is used to generate a simulated data sequence file SIMU30 containing a determined number of introns; the sequencing depth of the simulated data sequence file SIMU30 is 30 million, and the number of reads The length is 100 bases, and it is set to generate 15,000 genes and 69,338 introns; and a real data sequence file APP from the Tau and APP mouse model research of the Alzheimer's Disease Accelerated Drug Cooperation Project, and the sequencing depth 100 million with a read length of 101 bases;

[0061] S2. Define all independent intron sets in the genome and use it as a standard template; t...

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to view more

PUM

PropertyMeasurementUnit
Heightaaaaaaaaaa
Login to view more

Abstract

The invention discloses an intron retention prediction model establishing method. The method comprises the following steps of: collecting analog data and real data related to intron retention; defining all the independent intron sets in a genome and using the intron sets as standard templates; acquiring an intron sequence reading distribution mode picture data set in the obtained analog data, andprocessing the intron sequence reading distribution mode picture data set to obtain a processed data set; dividing the processed data set into a training set and a test set according to a set proportion; and training a neural network model by adopting the training set to obtain a finally established neural network intron retention prediction model. The invention also discloses a prediction methodcomprising the intron retention prediction model establishing method. According to the invention, introns can be visualized and predicted based on an intron retention reading distribution mode, and high reliability and good accuracy are obtained.

Description

technical field [0001] The present invention specifically designs a method for establishing an intron retention prediction model and a prediction method thereof. Background technique [0002] Intron retention is a type of alternative splicing, which means that the introns in the pre-mRNA are not spliced ​​out but are retained in the mature mRNA. Intron retention, previously thought to be the result of missplicing, has received less attention. Many recent studies have shown that intron retention is related to gene expression regulation and complex diseases (such as Alzheimer's disease); and with the development of high-throughput sequencing technology, there are already many intron retention detection Methods proposed, iREAD and IRFinder are more prominent. Among them, iREAD detects intron retention by assuming that the reads of intron retention are evenly distributed, and calculates the entropy value, and the corresponding filtering index is stricter. IRFinder detects int...

Claims

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to view more

Application Information

Patent Timeline
no application Login to view more
IPC IPC(8): G16B20/00G16B5/00G06N3/04
CPCG16B20/00G16B5/00G06N3/045Y02A90/10
Inventor 李洪东郑剑涛林翠香
Owner CENT SOUTH UNIV
Who we serve
  • R&D Engineer
  • R&D Manager
  • IP Professional
Why Eureka
  • Industry Leading Data Capabilities
  • Powerful AI technology
  • Patent DNA Extraction
Social media
Try Eureka
PatSnap group products

Browse by: Latest US Patents, China's latest patents, Technical Efficacy Thesaurus, Application Domain, Technology Topic.

© 2024 PatSnap. All rights reserved.Legal|Privacy policy|Modern Slavery Act Transparency Statement|Sitemap