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

2D NMR: Heteronuclear Single-Quantum Correlation Spectroscopy (HSQC)01:19

2D NMR: Heteronuclear Single-Quantum Correlation Spectroscopy (HSQC)

Heteronuclear single-quantum correlation spectroscopy (HSQC) is a 2D NMR technique that reveals one-bond correlations between hydrogen and a heteronucleus. The HSQC experiment is similar to the heteronuclear correlation experiment (HETCOR) but is more sensitive. In the HSQC spectrum, the proton chemical shift is plotted on the horizontal F2 axis, while the 13C chemical shift is plotted on the vertical F1 axis. The corresponding proton and 13C spectra are also shown. The HSQC contour plot does...
What Are Outliers?01:12

What Are Outliers?

Outliers are observed data points that are far from the least squares line. They have unusual values and need to be examined carefully. Though an outlier may result from erroneous data, at other times, it may hold valuable information about the population under study and should be included in the data. Hence, it is crucial to examine what causes a data point to be an outlier.
The z score is used to find outliers or unusual values. It should be noted that any values beyond -2 and +2 are...
Outliers and Influential Points01:08

Outliers and Influential Points

An outlier is an observation of data that does not fit the rest of the data. It is sometimes called an extreme value. When you graph an outlier, it will appear not to fit the pattern of the graph. Some outliers are due to mistakes (for example, writing down 50 instead of 500), while others may indicate that something unusual is happening. Outliers are present far from the least squares line in the vertical direction. They have large "errors," where the "error" or residual is the vertical...
Detection of Gross Error: The Q Test01:00

Detection of Gross Error: The Q Test

When one or more data points appear far from the rest of the data, there is a need to determine whether they are outliers and whether they should be eliminated from the data set to ensure an accurate representation of the measured value. In many cases, outliers arise from gross errors (or human errors) and do not accurately reflect the underlying phenomenon. In some cases, however, these apparent outliers reflect true phenomenological differences. In these cases, we can use statistical methods...
Quantifying and Rejecting Outliers: The Grubbs Test01:02

Quantifying and Rejecting Outliers: The Grubbs Test

Sometimes, a data set can have a recorded numerical observation that greatly  deviates from the rest of the data. Assuming that the data is normally distributed, a statistical method called the Grubbs test can be used to determine whether the observation is truly an outlier.  To perform a two-tailed Grubbs test, first, calculate the absolute difference between the outlier and the mean. Then, calculate the ratio between this difference and the standard deviation of the sample. This number is...

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

Author Correction: CITED2 is a druggable epigenetic switch coupling neuronal maturation to regenerative decline.

EMBO molecular medicine·2026
Same author

SCW: building the whole-genome 3D structures based on extremely sparse single-cell Hi-C data.

BMC bioinformatics·2026
Same author

CITED2 is a druggable epigenetic switch coupling neuronal maturation to regenerative decline.

EMBO molecular medicine·2026
Same author

scHiGex: predicting single-cell gene expression based on single-cell Hi-C data.

NAR genomics and bioinformatics·2025
Same author

PANDA-3D: protein function prediction based on AlphaFold models.

NAR genomics and bioinformatics·2024
Same author

Learning Micro-C from Hi-C with diffusion models.

PLoS computational biology·2024

相关实验视频

Updated: May 8, 2026

Automated Analysis of Dynamic Ca2+ Signals in Image Sequences
06:49

Automated Analysis of Dynamic Ca2+ Signals in Image Sequences

Published on: June 16, 2014

17.3K

HiC4D-SPOT:用于Hi-C数据的时空异常值检测工具.

Bishal Shrestha1, Zheng Wang1

  • 1Department of Computer Science, University of Miami, 1365 Memorial Drive, Coral Gables, FL 33146, United States.

Briefings in bioinformatics
|July 16, 2025
PubMed
概括

HiC4D-SPOT是一种新的深度学习工具,可以分析Hi-C数据中的3D染色质相互作用. 它准确地检测出时间不一致和染色体组织结构变化等异常.

科学领域:

  • 基因组学就是基因组学.
  • 计算生物学 计算生物学
  • 分子生物学分子生物学

背景情况:

  • 三维染色体组织对于细胞功能至关重要,例如基因调节和基因组稳定性.
  • 由于复杂的染色质动态,在时空空间Hi-C数据中检测异常是具有挑战性的.

研究的目的:

  • 开发一个无监督的深度学习框架,HiC4D-SPOT,用于识别空间时空Hi-C数据中的结构异常.
  • 为了建模染色质动态,并检测正常组织的偏差.

主要方法:

  • 使用基于ConvLSTM的自动编码器进行无监督的染色质动态学习.
  • 基准 HiC4D-SPOT 使用像皮尔森和斯皮尔曼相关系数这样的指标.
  • 验证了模拟和实验数据的框架,包括时间交换实验和差异化研究.

主要成果:

  • 实现了高重建保真度,相关系数为0.9.9.
  • 成功检测到时间不一致,拓关联域 (TAD) 和循环扰动.
  • 确定了生物相关事件,如HERV-H边界减弱和凝聚蛋白介导循环动态.

结论:

  • HiC4D-SPOT是一种有效的工具,用于分析从时空空间Hi-C数据的3D染色质动态.
关键词:
这就是ConvLSTM.这就是Hi-C.检测异常检测异常检测时间空间自动编码器时间空间动态空间动态.

更多相关视频

Longitudinal Morphological and Physiological Monitoring of Three-dimensional Tumor Spheroids Using Optical Coherence Tomography
08:50

Longitudinal Morphological and Physiological Monitoring of Three-dimensional Tumor Spheroids Using Optical Coherence Tomography

Published on: February 9, 2019

7.8K
Functional Near-Infrared Spectroscopy Hyperscanning Study in Psychological Counseling
06:04

Functional Near-Infrared Spectroscopy Hyperscanning Study in Psychological Counseling

Published on: January 17, 2025

747

相关实验视频

Last Updated: May 8, 2026

Automated Analysis of Dynamic Ca2+ Signals in Image Sequences
06:49

Automated Analysis of Dynamic Ca2+ Signals in Image Sequences

Published on: June 16, 2014

17.3K
Longitudinal Morphological and Physiological Monitoring of Three-dimensional Tumor Spheroids Using Optical Coherence Tomography
08:50

Longitudinal Morphological and Physiological Monitoring of Three-dimensional Tumor Spheroids Using Optical Coherence Tomography

Published on: February 9, 2019

7.8K
Functional Near-Infrared Spectroscopy Hyperscanning Study in Psychological Counseling
06:04

Functional Near-Infrared Spectroscopy Hyperscanning Study in Psychological Counseling

Published on: January 17, 2025

747
  • 该框架可以检测显著的结构异常和染色质重塑事件.