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相关概念视频

Genome Annotation and Assembly03:36

Genome Annotation and Assembly

18.8K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
18.8K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

5.7K
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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Genomic DNA in Eukaryotes00:58

Genomic DNA in Eukaryotes

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Eukaryotes have large genomes compared to prokaryotes. To fit their genomes into a cell, eukaryotic DNA is packaged extraordinarily tightly inside the nucleus. To achieve this, DNA is tightly wound around proteins called histones, which are packaged into nucleosomes that are joined by linker DNA and coil into chromatin fibers. Additional fibrous proteins further compact the chromatin, which is recognizable as chromosomes during certain phases of cell division.
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Eukaryotic Evolution01:24

Eukaryotic Evolution

33.0K
The endosymbiont theory is the most widely accepted theory of eukaryotic evolution; however, its progression is still somewhat debated. According to the nucleus-first hypothesis, the ancestral prokaryote first evolved a membrane to enclose DNA and form the nucleus. Conversely, the mitochondria-first hypothesis suggests that the nucleus was formed after endosymbiosis of mitochondria.
Contrary to the endosymbiont theory, the eukaryote-first hypothesis proposes that the simpler prokaryotic and...
33.0K
Genomics02:02

Genomics

36.2K
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
36.2K
Synteny and Evolution02:31

Synteny and Evolution

3.2K
John H. Renwick first coined the term “synteny” in 1971, which refers to the genes present on the same chromosomes, even if they are not genetically linked. The species with common ancestry tend to show conserved syntenic regions. Therefore, the concept of synteny is nowadays used to describe the evolutionary relationship between species.
Around 80 million years ago, the human and mice lineages diverged from the common ancestor. During the course of evolution, the ancestral...
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相关实验视频

Updated: Jun 16, 2025

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
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Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

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使用EviAnn有效的基于证据的基因组注释.

Aleksey V Zimin, Daniela Puiu, Mihaela Pertea

    bioRxiv : the preprint server for biology
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    PubMed
    概括
    此摘要是机器生成的。

    EviAnn是一个新的基于证据的基因注释系统,其性能优于现有的工具. 它使用转录对齐和蛋白质同质性来准确发现真核生物基因,节省了大量的计算时间.

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    相关实验视频

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    科学领域:

    • 基因组学就是基因组学.
    • 生物信息学是一种生物信息学.
    • 计算生物学 计算生物学

    背景情况:

    • 基于机器学习的ab initio基因发现已经主导了真核生物基因组注释.
    • 从历史上看,基因表达数据和蛋白质同质性由于成本和可用性而未得到充分利用.
    • 测序技术的进步现在提供了丰富的基因表达数据.

    研究的目的:

    • 开发一种新的基于证据的真核细胞基因注释系统,命名为EviAnn.
    • 为了利用转录对齐和蛋白质同质性来更准确地预测基因结构.
    • 改进现有的基因注释包.

    主要方法:

    • EviAnn采用数据驱动的方法,依赖于转录对齐和蛋白质序列同质性.
    • 它建立了基于经验证据而不是仅仅是"ab initio"方法的外子-内子结构.
    • 该系统与BRAKER3,MAKER2和FINDER等最先进的软件包进行了比较.

    主要成果:

    • 当给出相同的输入数据时,EviAnn的表现始终优于BRAKER3,MAKER2和FINDER.
    • 该系统在真核生物基因注释中实现了高精度.
    • 哺乳动物基因组的注释在单个多核服务器上在不到一个小时内完成,证明了计算效率.

    结论:

    • EviAnn代表了基于证据的真核生物基因注释的重大进步.
    • 它的数据驱动方法和效率为现有方法提供了优越的替代方案.
    • 该系统作为一个开源工具,可以免费使用.