Jove
Visualize
联系我们
JoVE
x logofacebook logolinkedin logoyoutube logo
关于 JoVE
概览领导团队博客JoVE 帮助中心
作者
出版流程编辑委员会范围与政策同行评审常见问题投稿
图书馆员
用户评价订阅访问资源图书馆顾问委员会常见问题
研究
JoVE JournalMethods CollectionsJoVE Encyclopedia of Experiments存档
教育
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab Manual教师资源中心教师网站
使用条款与条件
隐私政策
政策

相关概念视频

Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

7.0K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
7.0K
Phylogenetic Trees03:21

Phylogenetic Trees

45.2K
Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.
45.2K
Phylogeny01:23

Phylogeny

43.7K
Phylogeny is concerned with the evolutionary diversification of organisms or groups of organisms. A group of organisms with a name is called a taxon (singular). Taxa (plural) can span different levels of the evolutionary hierarchy. For instance, the group containing all birds is a taxon (comprising the class Aves), and the group of all species of daisies (the genus Bellis) is a taxon. Phylogenies can likewise include just one genus (i.e., depict species relationships) or span an entire kingdom.
43.7K
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...
5.7K
Multi-species Conserved Sequences02:51

Multi-species Conserved Sequences

3.9K
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.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
3.9K
Gene Duplication and Divergence02:37

Gene Duplication and Divergence

6.0K
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.
The duplicated copies of the gene are called Paralogs. Paralogs with similar sequences and functions form a gene family. Across several species, a large number of gene families are...
6.0K

您也可能阅读

相关文章

通过共同作者、期刊和引用图与本文相关的文章。

排序
Same author

bayesReact: expression-coupled regulatory motif analysis detects microRNA activity across cancers, tissues, and at the single-cell level.

Nucleic acids research·2026
Same author

Computational pathology annotation enhances the resolution and interpretation of breast cancer spatial transcriptomics data.

NPJ precision oncology·2025
Same author

PhyClone: accurate Bayesian reconstruction of cancer phylogenies from bulk sequencing.

Bioinformatics (Oxford, England)·2025
Same author

Author Correction: Integrative spatial and genomic analysis of tumor heterogeneity with Tumoroscope.

Nature communications·2025
Same author

CopyMix: Mixture model based single-cell clustering and copy number profiling using variational inference.

Computational biology and chemistry·2024
Same author

Integrative spatial and genomic analysis of tumor heterogeneity with Tumoroscope.

Nature communications·2024

相关实验视频

Updated: Jun 7, 2025

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

15.8K

稀疏邻居结合:使用稀疏距离矩阵进行快速的家族遗传推断.

Semih Kurt1, Alexandre Bouchard-Côté2, Jens Lagergren1

  • 1School of EECS and SciLifeLab, KTH Royal Institute of Technology, Stockholm, 100 44, Sweden.

Bioinformatics (Oxford, England)
|November 21, 2024
PubMed
概括

一个新的Sparse Neighbor Joining算法通过避免密集距离矩阵计算来加快家族遗传树的重建速度. 这种方法减少了大型数据集的执行时间,提供了准确度的权衡.

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.
  • 人类遗传学 是一个学科.

背景情况:

  • 遗传学重建在计算生物学中至关重要.
  • 邻居连接 (NJ) 算法是基于距离的高效方法.
  • 将NJ扩展到大型数据集是由于距离矩阵的计算而受到限制的.

研究的目的:

  • 开发一种新的算法,以更快地重建家族遗传树.
  • 为了克服传统的邻居连接算法的计算瓶.

主要方法:

  • 提出一种新的算法,避免计算密集距离矩阵.
  • 动态确定一个稀疏的距离矩阵输入集来计算.
  • 实现一个基本版本的O{n log n) 条目和一个增强版本的O{n log^2 n) 条目.

主要成果:

  • 新的算法显著减少了大型数据集的执行时间.
  • 实验结果表明,与标准NJ相比,性能有所改善.
  • 观察到执行速度和准确性之间的权衡.

结论:

  • 稀疏邻居结合提供了一个可扩展的替代品,用于遗传学重建.

更多相关视频

A Practical Guide to Phylogenetics for Nonexperts
12:00

A Practical Guide to Phylogenetics for Nonexperts

Published on: February 5, 2014

35.3K
The ITS2 Database
16:17

The ITS2 Database

Published on: March 12, 2012

30.7K

相关实验视频

Last Updated: Jun 7, 2025

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

15.8K
A Practical Guide to Phylogenetics for Nonexperts
12:00

A Practical Guide to Phylogenetics for Nonexperts

Published on: February 5, 2014

35.3K
The ITS2 Database
16:17

The ITS2 Database

Published on: March 12, 2012

30.7K
  • 该算法为分析大型生物数据集提供了实用解决方案.
  • Python 实现是公开可用的,供使用和进一步开发.