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相关概念视频

Genomics02:02

Genomics

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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...
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DNA Microarrays02:34

DNA Microarrays

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Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
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RNA-seq03:21

RNA-seq

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
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Imaging Biological Samples with Optical Microscopy01:18

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Optical microscopy uses optic principles to provide detailed images of samples. Antonie van Leeuwenhoek designed the first compound optical microscope in the 17th century to visualize blood cells, bacteria, and yeast cells. In 1830, Joseph Jackson Lister created an essentially modern light microscope. The 20th century saw the development of microscopes with enhanced magnification and resolution.
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Electron Microscope Tomography and Single-particle Reconstruction01:07

Electron Microscope Tomography and Single-particle Reconstruction

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Transmission electron microscopy (TEM) can be used to determine the 3D structure of biological samples with the help of techniques such as electron microscope tomography and single-particle reconstruction. While single-particle reconstruction can examine macromolecules and macromolecular complexes in vitro conditions only, tomography permits the study of cell components or small cells in vivo.
Electron Tomography
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Sample Preparation for Analysis: Advanced Techniques01:08

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Accurate analysis of complex samples often requires advanced preparation techniques to achieve reliable and reproducible results. Samples containing inorganic or organic materials can be challenging to dissolve or decompose effectively. Standard sample preparation methods include acid digestion, fusion, dry ashing, and wet digestion.
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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms
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维斯托塞格 (VistoSeg):用于处理高分辨率图像的处理实用程序,用于空间分辨率的转录学数据.

Madhavi Tippani1, Heena R Divecha1, Joseph L Catallini1,2

  • 1Lieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.

Biological imaging
|March 21, 2024
PubMed
概括
此摘要是机器生成的。

维斯托塞格 (VistoSeg) 是一种新的MATLAB管道,可以处理来自空间转录组学 (SRT) 平台的高分辨率图像. 该工具将基因表达数据与组织形态相结合,增强了生物洞察力.

关键词:
在 MATLAB 中,我们可以使用 MATLAB.这就是Visium Visium.视觉空间蛋白质基因组学血素和乙氨酸的使用.免疫光效应 免疫光效应细分化 细分化的细分化空间分辨率的转录学

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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:

  • 空间解析转录学 (SRT) 将基因表达与组织解剖学联系起来.
  • 基于下一代测序 (NGS) 的SRT平台,如10x Genomics Visium,提供基因表达映射.
  • 现有有限的计算工具可以将这些平台的图像数据与基因表达结合起来.

研究的目的:

  • 开发VistoSeg,这是一个用于处理和分析来自Visium平台的高分辨率图像的MATLAB管道.
  • 为了使图像衍生的指标与空间解析的转录数据集成.
  • 为了促进R和Python的下游分析.

主要方法:

  • 开发了VistoSeg作为一个MATLAB管道.
  • 设计用于处理,分析和可视化高分辨率组织学和免疫光图像.
  • 输出与转录基因数据兼容,用于整合.

主要成果:

  • VistoSeg提供了用户友好的工具,用于将图像指标与空间基因表达数据集成.
  • 该管道处理并可视化来自Visium平台的高分辨率图像.
  • 促进了在组织架构中的转录景观的增强理解.

结论:

  • 维斯托塞格 (VistoSeg) 增强了形态和转录组数据在空间转录组学中的整合.
  • 管道支持在常用编程语言下游分析.
  • VistoSeg 提高了在组织上下文内的空间基因表达数据的解释性.