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相关概念视频

Alternative RNA Splicing02:18

Alternative RNA Splicing

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Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

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Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

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Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
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RNA Splicing01:32

RNA Splicing

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Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
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Multi-species Conserved Sequences02:51

Multi-species Conserved Sequences

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Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale  studies have provided new insights into the evolutionary relationship between organisms.
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Gene Duplication and Divergence02:37

Gene Duplication and Divergence

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The seminal work of Ohno in 1970 popularized the idea of gene duplication and divergence. DNA sequence comparison studies reveal that a large portion of the genes in bacteria, archaebacteria, and eukaryotes was  generated by gene duplication and divergence, indicating its critical role in evolution.
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相关实验视频

Updated: Jun 21, 2025

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
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Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

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SimSpliceEvol2:对生物序列演变和转录系谱的替代拼接意识模拟.

Wend Yam D D Ouedraogo1, Aida Ouangraoua2

  • 1Department of Computer Science, Université de Sherbrooke, 2500 Bd de l'université, Sherbrooke, QC, J1K2R1, Canada. wend.yam.donald.davy.ouedraogo@usherbrooke.ca.

BMC bioinformatics
|July 11, 2024
PubMed
概括

SimSpliceEvol2通过模拟基因树上的转录演变来增强真核细胞基因序列模拟. 这种新版本可以对转录和基因系谱推断方法进行强有力的评估,改善了拼接RNA序列分析.

关键词:
另一个替代拼接.进化 进化 进化 进化 进化 进化 进化外子-内子结构结构.模拟模拟是为了模拟.转录的原种学.

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A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
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科学领域:

  • 计算生物学 计算生物学
  • 生物信息学是一种生物信息学.
  • 进化基因组学 进化基因组学

背景情况:

  • SimSpliceEvol模拟了真核生物基因和转录进化,但缺乏转录之间的进化联系.
  • 这一局限性阻碍了其在评估依赖于转录保存的转录或基因系谱推断方法中的使用.

研究的目的:

  • 介绍SimSpliceEvol2,一个改进的模拟基因和转录进化的工具.
  • 在基因树上结合一个明确的转录进化模型.
  • 为可访问性提供一个用户友好的界面和Web服务器.

主要方法:

  • 开发了SimSpliceEvol2与一个明确的模型替代转录进化.
  • 在模拟过程中整合了转录系谱推断.
  • 为该工具创建了一个图形用户界面和更新的Web服务器.

主要成果:

  • SimSpliceEvol2模拟了沿着指导基因树的转录进化,推断了转录的族系.
  • 该工具生成合成数据集,用于评估拼接RNA序列分析方法.
  • 有一个用户友好的图形界面和Web服务器可用.

结论:

  • SimSpliceEvol2提供了有价值的合成数据集,用于评估拼接对齐,保存转录识别和转录谱系重建方法.
  • 该工具及其源代码可以通过Web服务器和GitHub存储库访问.
  • 促进了拼接RNA序列分析和进化研究的进步.